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This page was generated on 2025-02-04 11:40 -0500 (Tue, 04 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4716
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4478
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4489
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4442
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 202/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.13.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-02-03 13:40 -0500 (Mon, 03 Feb 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 686a27c
git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024)
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

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: 1.13.0
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_1.13.0.tar.gz
StartedAt: 2025-02-03 23:33:25 -0500 (Mon, 03 Feb 2025)
EndedAt: 2025-02-03 23:37:10 -0500 (Mon, 03 Feb 2025)
EllapsedTime: 224.6 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_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck'
* using R Under development (unstable) (2025-01-21 r87610 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* 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 '1.13.0'
* 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 3.44   2.47  104.54
* 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 '1.13.0'
** 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 Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"
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 [2025-02-03 23:36:00.712][biodb::testContext]
biodb.INFO [2025-02-03 23:36:00.716][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:00.719][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-03 23:36:00.721][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:00.723][biodb::testContext]
biodb.INFO [2025-02-03 23:36:00.731][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:00.733][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:00.742][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:00.744][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 23:36:00.745][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.750][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 23:36:00.769][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.777][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 23:36:00.778][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.785][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 23:36:00.787][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 23:36:00.789][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 23:36:00.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.796][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 23:36:00.798][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 23:36:00.800][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.821][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 23:36:00.822][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 23:36:00.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.826][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[2025-02-03 23:36:00.827][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 23:36:00.828][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 23:36:00.829][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 23:36:00.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.833][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 23:36:00.835][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.839][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 23:36:00.840][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 23:36:00.841][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 23:36:00.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.846][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:00.847][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 23:36:00.848][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 23:36:00.849][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 23:36:00.850][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 23:36:00.851][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 23:36:00.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.855][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[2025-02-03 23:36:00.856][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 23:36:00.857][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 23:36:00.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.861][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 23:36:00.863][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 23:36:00.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.866][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.DEBUG[2025-02-03 23:36:00.867][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 23:36:00.868][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 23:36:00.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.873][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 23:36:00.874][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 23:36:00.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.878][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 23:36:00.879][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 23:36:00.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.884][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:00.885][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 23:36:00.888][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 23:36:00.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.891][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[2025-02-03 23:36:00.893][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 23:36:00.894][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 23:36:00.895][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 23:36:00.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:00.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:00.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:00.901][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 23:36:00.929][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:00.944][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 23:36:00.945][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:00.948][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.949][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:00.950][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:00.952][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:00.953][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:00.954][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:00.955][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.956][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 23:36:00.958][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:00.959][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:00.960][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.961][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:00.961][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:00.961][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:00.961][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:00.961][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:00.963][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:00.964][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:00.965][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:00.966][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:00.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:00.968][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:00.969][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:00.971][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:00.972][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:00.973][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:00.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:00.975][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:00.977][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 23:36:00.979][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:00.980][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:00.981][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.982][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:00.983][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.985][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:00.986][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:00.987][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:00.988][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:00.989][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:00.991][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.992][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 23:36:00.993][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:00.994][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:00.995][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:00.997][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:00.997][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:00.997][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:00.997][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:00.997][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:00.998][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:00.999][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.000][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.001][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:01.002][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.005][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.006][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.007][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:01.008][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:01.009][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.010][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.012][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 23:36:01.014][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.015][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 23:36:01.016][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.017][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:01.018][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.020][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.021][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.022][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.023][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:01.024][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:01.026][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.027][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 23:36:01.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:01.029][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.031][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.032][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.033][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:01.040][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.041][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.042][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:01.043][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.044][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.045][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.047][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.048][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:01.049][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:01.050][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.051][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.052][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 23:36:01.054][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.056][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:01.057][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.058][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:01.059][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.060][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.061][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.063][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.064][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:01.065][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:01.066][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.067][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 23:36:01.069][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:01.070][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.071][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.072][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.073][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:01.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.077][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:01.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.080][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.081][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.082][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:01.083][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:01.085][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.086][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:01.089][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:01.091][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.097][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[2025-02-03 23:36:01.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.108][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[2025-02-03 23:36:01.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.113][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[2025-02-03 23:36:01.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.119][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[2025-02-03 23:36:01.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.135][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[2025-02-03 23:36:01.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.140][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[2025-02-03 23:36:01.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.151][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[2025-02-03 23:36:01.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.157][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[2025-02-03 23:36:01.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.190][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[2025-02-03 23:36:01.191][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 23:36:01.195][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 23:36:01.197][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 23:36:01.198][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 23:36:01.200][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:01.201][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 23:36:01.203][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:01.204][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:01.206][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 23:36:01.207][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 23:36:01.209][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:01.210][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 23:36:01.212][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:01.213][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:01.215][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 23:36:01.216][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 23:36:01.218][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 23:36:01.219][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 23:36:01.221][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:01.222][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 23:36:01.224][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 23:36:01.225][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 23:36:01.227][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 23:36:01.228][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 23:36:01.230][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 23:36:01.232][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 23:36:01.233][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 23:36:01.235][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 23:36:01.236][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 23:36:01.238][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 23:36:01.239][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 23:36:01.241][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 23:36:01.242][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 23:36:01.244][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 23:36:01.245][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 23:36:01.247][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 23:36:01.248][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 23:36:01.250][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 23:36:01.251][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 23:36:01.253][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 23:36:01.254][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 23:36:01.256][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 23:36:01.258][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 23:36:01.259][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 23:36:01.261][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 23:36:01.262][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 23:36:01.264][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 23:36:01.265][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 23:36:01.267][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 23:36:01.268][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 23:36:01.270][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 23:36:01.272][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 23:36:01.278][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 23:36:01.280][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 23:36:01.282][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 23:36:01.283][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 23:36:01.285][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 23:36:01.286][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 23:36:01.288][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 23:36:01.289][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 23:36:01.291][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 23:36:01.292][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 23:36:01.294][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 23:36:01.295][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 23:36:01.297][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 23:36:01.298][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 23:36:01.300][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:01.301][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:01.303][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 23:36:01.304][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 23:36:01.306][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 23:36:01.307][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 23:36:01.309][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 23:36:01.310][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 23:36:01.312][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 23:36:01.313][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 23:36:01.315][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 23:36:01.317][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 23:36:01.318][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 23:36:01.320][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 23:36:01.321][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 23:36:01.323][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 23:36:01.324][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 23:36:01.347][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 23:36:01.350][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:01.353][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:01.354][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.356][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.396][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[2025-02-03 23:36:01.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.430][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.DEBUG[2025-02-03 23:36:01.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.438][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[2025-02-03 23:36:01.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.453][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[2025-02-03 23:36:01.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.482][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[2025-02-03 23:36:01.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.504][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[2025-02-03 23:36:01.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:01.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:01.515][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:01.523][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 23:36:01.526][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.527][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.528][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.529][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:01.530][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.532][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.533][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.534][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 23:36:01.535][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 23:36:01.541][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:01.543][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.544][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 23:36:01.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 23:36:01.546][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 23:36:01.548][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:01.549][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:01.549][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:01.549][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:01.550][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 23:36:01.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.553][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:01.555][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:01.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:01.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:01.558][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:01.558][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 23:36:01.559][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:01.560][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:01.561][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:01.563][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 23:36:01.563][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 23:36:01.568][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:01.570][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:01.572][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 23:36:01.573][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:01.575][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:01.577][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:01.598][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 23:36:01.600][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 23:36:01.604][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 23:36:01.607][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 23:36:01.611][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:01.612][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:01.614][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 23:36:01.615][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 23:36:01.625][biodb::testThat]
biodb.INFO [2025-02-03 23:36:01.626][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-02-03 23:36:01.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:01.628][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:01.693][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-02-03 23:36:01.695][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:01.699][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:01.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:01.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:01.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:01.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:01.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:01.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:01.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:01.747][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.748][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.751][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.773][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:01.774][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:01.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.776][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:01.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.806][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:01.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:01.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.810][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:01.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:01.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:01.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:01.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.819][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:01.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.826][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:01.827][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:01.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.829][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:01.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:01.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:01.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:01.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.876][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.878][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:01.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:01.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.883][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:01.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:01.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.886][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.888][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:01.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:01.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:01.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:01.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.896][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:01.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:01.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.902][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:01.903][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:01.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.906][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.907][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:01.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.912][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:01.913][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:01.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.916][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.917][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:01.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:01.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.922][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:01.923][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:01.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.925][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:01.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:01.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:01.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:01.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:01.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:01.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:01.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:02.038][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-02-03 23:36:02.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:02.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:02.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:02.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:02.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:02.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.116][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:02.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:02.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.266][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.270][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.316][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:02.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.358][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.361][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.398][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.399][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.401][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.402][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.431][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.432][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.435][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.469][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.472][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.493][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.497][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.502][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.503][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.505][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.507][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.526][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.531][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.541][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.545][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.546][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.570][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.575][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.576][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.578][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.579][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.599][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.608][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.612][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.659][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.665][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.703][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.705][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.729][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.733][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.754][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:02.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:02.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.758][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.771][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:02.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:02.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.775][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.787][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:02.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:02.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.791][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.798][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.799][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:02.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.801][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.815][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:02.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.825][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.826][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:02.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.828][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.840][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.841][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:02.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.844][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.853][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:02.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.856][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.868][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:02.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:02.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.872][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:02.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:02.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.882][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:02.894][biodb::testThat]
biodb.INFO [2025-02-03 23:36:02.896][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-03 23:36:02.897][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:02.898][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:02.910][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-02-03 23:36:02.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:02.922][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-02-03 23:36:02.924][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:02.927][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-02-03 23:36:02.928][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:02.948][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:02.950][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:02.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:02.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:02.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:02.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:02.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:02.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:02.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:02.967][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.968][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.970][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:02.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:02.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:02.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:02.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.003][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:03.006][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:03.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.009][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:03.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:03.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.028][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:03.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:03.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.034][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:03.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:03.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.044][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:03.046][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:03.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.049][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:03.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:03.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:03.061][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:03.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.064][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:03.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:03.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:03.076][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:03.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.080][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.082][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:03.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:03.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.090][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:03.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:03.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.095][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:03.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:03.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.105][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:03.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:03.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.111][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:03.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:03.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.121][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.124][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.130][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:03.132][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:03.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.134][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:03.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:03.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.140][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:03.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:03.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.144][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:03.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:03.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:03.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:03.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:03.199][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-02-03 23:36:03.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-03 23:36:03.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-03 23:36:03.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-03 23:36:03.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-03 23:36:03.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-03 23:36:03.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-03 23:36:03.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:03.258][biodb::testThat]
biodb.INFO [2025-02-03 23:36:03.259][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-03 23:36:03.261][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:03.262][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:03.265][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.269][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:03.271][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-02-03 23:36:03.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:03.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:03.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:03.338][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-02-03 23:36:03.342][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 23:36:03.361][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:03.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 23:36:03.376][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:03.379][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 23:36:03.415][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[2025-02-03 23:36:03.421][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:03.423][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:03.425][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:04.035][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:04.502][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:04.505][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-02-03 23:36:04.520][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-02-03 23:36:04.523][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-02-03 23:36:04.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:04.619][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:04.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.621][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.622][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.624][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.626][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:04.633][biodb::testThat]
biodb.INFO [2025-02-03 23:36:04.634][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-02-03 23:36:04.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:04.636][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:04.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:04.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:04.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:04.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:04.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:04.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:04.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:04.743][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:04.747][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:04.749][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:04.750][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:04.755][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-02-03 23:36:04.793][biodb::testThat]
biodb.INFO [2025-02-03 23:36:04.795][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-02-03 23:36:04.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:04.799][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:04.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:04.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:04.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.861][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.866][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.870][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:04.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:04.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.875][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:04.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:04.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:04.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:04.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:04.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:04.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:04.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.923][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.928][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 23:36:04.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.933][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:04.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 23:36:04.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:04.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:04.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 23:36:04.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:04.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:04.958][biodb::testThat]
biodb.INFO [2025-02-03 23:36:04.959][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-03 23:36:04.960][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:04.961][biodb::testThat]
biodb.INFO [2025-02-03 23:36:04.979][biodb::testThat]
biodb.INFO [2025-02-03 23:36:04.980][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-03 23:36:04.981][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:04.982][biodb::testThat]
biodb.INFO [2025-02-03 23:36:05.008][biodb::testThat]
biodb.INFO [2025-02-03 23:36:05.011][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-03 23:36:05.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:05.015][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:05.023][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-02-03 23:36:05.838][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-02-03 23:36:06.819][biodb::testThat]
biodb.INFO [2025-02-03 23:36:06.820][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-03 23:36:06.822][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:06.823][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:07.205][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[2025-02-03 23:36:07.567][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:07.569][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:07.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.572][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:07.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:07.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.577][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:07.580][biodb::testThat]
biodb.INFO [2025-02-03 23:36:07.581][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-02-03 23:36:07.582][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:07.584][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:07.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:07.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:07.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:07.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:07.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:07.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:07.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:07.764][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:07.768][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:07.770][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:07.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:07.774][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 23:36:07.847][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:07.863][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:07.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:07.867][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:07.870][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-02-03 23:36:07.908][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 23:36:07.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 23:36:07.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:07.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:07.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:07.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:07.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:07.982][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:07.984][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:07.998][private$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[2025-02-03 23:36:08.310][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[2025-02-03 23:36:08.612][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:08.617][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-02-03 23:36:08.623][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-02-03 23:36:08.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:08.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:08.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:08.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:08.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:08.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:08.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:08.649][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-02-03 23:36:08.697][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:08.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-02-03 23:36:08.701][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:08.703][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:08.705][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:08.706][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:08.707][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:08.709][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:08.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:08.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:08.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:08.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:08.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:08.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:08.726][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[2025-02-03 23:36:08.728][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-02-03 23:36:08.732][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:08.734][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:08.735][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-02-03 23:36:09.075][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-02-03 23:36:09.380][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:09.385][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-02-03 23:36:09.391][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-02-03 23:36:09.396][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-02-03 23:36:09.399][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:09.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:09.404][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:09.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:09.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:09.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:09.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:09.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:09.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:09.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:09.432][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.443][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.449][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:09.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:09.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.453][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.454][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:09.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:09.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.459][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:09.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:09.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.463][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:09.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.470][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:09.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:09.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.473][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:09.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:09.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.483][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.490][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:09.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:09.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.494][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.495][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:09.497][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.499][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.500][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:09.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:09.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:09.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.510][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:09.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:09.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.518][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:09.519][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:09.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.521][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:09.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.528][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:09.529][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:09.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.531][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.533][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:09.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:09.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.538][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:09.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:09.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.541][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.543][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:09.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:09.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:09.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:09.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:09.602][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-02-03 23:36:09.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:09.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:09.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:09.627][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[2025-02-03 23:36:09.631][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:09.632][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:09.634][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:09.941][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:10.236][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:10.239][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-02-03 23:36:10.244][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-02-03 23:36:10.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:10.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:10.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:10.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:10.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:10.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:10.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:10.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:10.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:10.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:10.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:10.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:10.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:10.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:10.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:10.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:10.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:10.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:10.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:10.315][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-02-03 23:36:10.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:10.318][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-02-03 23:36:10.320][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:10.321][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:10.323][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:10.324][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:10.333][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:10.334][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:10.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:10.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:10.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:10.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:10.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:10.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:10.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:10.370][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-02-03 23:36:10.373][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:10.374][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:10.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-02-03 23:36:10.715][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-02-03 23:36:11.025][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:11.028][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-02-03 23:36:11.032][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-02-03 23:36:11.036][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-02-03 23:36:11.038][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:11.040][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:11.041][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:11.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:11.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:11.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:11.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:11.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:11.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:11.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:11.059][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.063][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.069][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:11.070][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:11.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.073][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:11.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:11.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.080][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:11.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:11.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.083][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:11.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:11.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:11.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:11.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.093][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.100][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:11.101][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:11.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.103][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:11.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.110][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:11.111][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:11.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.113][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.115][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:11.116][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.118][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:11.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:11.133][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:11.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.136][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:11.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:11.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.145][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:11.146][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:11.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.149][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:11.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.155][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:11.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:11.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.159][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:11.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:11.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:11.167][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:11.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.170][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.171][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:11.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:11.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:11.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:11.225][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-02-03 23:36:11.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:11.289][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:11.292][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:11.294][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:11.296][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:11.299][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 23:36:11.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:11.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:11.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:11.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:11.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:11.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:11.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:11.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:11.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:11.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:11.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:11.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:11.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:11.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:11.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:11.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:11.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:11.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:11.359][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-02-03 23:36:11.360][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:11.362][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-02-03 23:36:11.364][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:11.365][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:11.366][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:11.368][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:11.369][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:11.370][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:11.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:11.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:11.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:11.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:11.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:11.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:11.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:11.396][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-02-03 23:36:11.399][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:11.400][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:11.402][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-02-03 23:36:11.739][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-02-03 23:36:12.050][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:12.053][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-02-03 23:36:12.057][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-02-03 23:36:12.061][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-02-03 23:36:12.063][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:12.065][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:12.066][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:12.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:12.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:12.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:12.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:12.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:12.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:12.093][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.TRACE[2025-02-03 23:36:12.096][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.100][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.106][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:12.107][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:12.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.110][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.111][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:12.112][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:12.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.115][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.116][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:12.118][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:12.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.120][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:12.123][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:12.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.125][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:12.135][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:12.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.138][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.140][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:12.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.144][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.145][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:12.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:12.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.149][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.150][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:12.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:12.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.154][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:12.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:12.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.160][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:12.161][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:12.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.164][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:12.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:12.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:12.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:12.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.174][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:12.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:12.223][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-02-03 23:36:12.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:12.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:12.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:12.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:12.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:12.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:12.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:12.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:12.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:12.268][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-02-03 23:36:12.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:12.271][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-02-03 23:36:12.272][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:12.274][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:12.275][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:12.276][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:12.283][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:12.284][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:12.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:12.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:12.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:12.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:12.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:12.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:12.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:12.310][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-02-03 23:36:12.313][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:12.314][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:12.316][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-02-03 23:36:12.647][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-02-03 23:36:12.949][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:12.952][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-02-03 23:36:12.956][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-02-03 23:36:12.960][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-02-03 23:36:12.962][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:12.964][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:12.966][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:12.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:12.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:12.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:12.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:12.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:12.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:12.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:12.983][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.987][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:12.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:12.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:12.995][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:12.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:12.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:12.999][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.000][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:13.002][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:13.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.004][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:13.007][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:13.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.009][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:13.012][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:13.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.014][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:13.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:13.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.019][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.021][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:13.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.024][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:13.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:13.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.029][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.031][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:13.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:13.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.034][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.041][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:13.042][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:13.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.045][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.046][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:13.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.051][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:13.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:13.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.055][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:13.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:13.142][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-02-03 23:36:13.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:13.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:13.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:13.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:13.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:13.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:13.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:13.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:13.226][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-02-03 23:36:13.227][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:13.229][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-02-03 23:36:13.231][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:13.232][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:13.233][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:13.234][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:13.236][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:13.237][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:13.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:13.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:13.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:13.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:13.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:13.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:13.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:13.257][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-02-03 23:36:13.260][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:13.261][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:13.263][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-02-03 23:36:13.586][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-02-03 23:36:13.890][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:13.893][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-02-03 23:36:13.898][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-02-03 23:36:13.902][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-02-03 23:36:13.905][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:13.906][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:13.908][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:13.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:13.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:13.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:13.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:13.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:13.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:13.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:13.951][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:13.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:13.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.961][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:13.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:13.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.965][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:13.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:13.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.970][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.972][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:13.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:13.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.976][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.977][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:13.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:13.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.983][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:13.985][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:13.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.989][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.991][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:13.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:13.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:13.996][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:13.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:14.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:14.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.004][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.007][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:14.009][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:14.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.012][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:14.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:14.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.023][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:14.025][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:14.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.028][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:14.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:14.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:14.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:14.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.038][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:14.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:14.089][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-02-03 23:36:14.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:14.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:14.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:14.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:14.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:14.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:14.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:14.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:14.134][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-02-03 23:36:14.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:14.137][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-02-03 23:36:14.140][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:14.142][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:14.144][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:14.145][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:14.147][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:14.149][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:14.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:14.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:14.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:14.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:14.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:14.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:14.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:14.186][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-02-03 23:36:14.190][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:14.192][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:14.195][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-02-03 23:36:14.553][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-02-03 23:36:14.883][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:14.886][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-02-03 23:36:14.890][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-02-03 23:36:14.894][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-02-03 23:36:14.896][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:14.899][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:14.901][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:14.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:14.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:14.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:14.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:14.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:14.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:14.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:14.926][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.927][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.930][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:14.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:14.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.936][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:14.937][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:14.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.940][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.941][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:14.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:14.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.946][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:14.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:14.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.950][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:14.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:14.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:14.958][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:14.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.960][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:14.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:14.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:14.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:14.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.972][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:14.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:14.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.986][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:14.988][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:14.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.990][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.992][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:14.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:14.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:14.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:14.996][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:14.998][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:14.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.000][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.001][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:15.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.006][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:15.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:15.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.010][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:15.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:15.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:15.021][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:15.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.024][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:15.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:15.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.031][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:15.032][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:15.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.035][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.036][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:15.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:15.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.041][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:15.042][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:15.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.045][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.046][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:15.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:15.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:15.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:15.100][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-02-03 23:36:15.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:15.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:15.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:15.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:15.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:15.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:15.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:15.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:15.141][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-02-03 23:36:15.144][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:15.147][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-02-03 23:36:15.149][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:15.151][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:15.152][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:15.153][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:15.155][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:15.156][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:15.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:15.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:15.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:15.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:15.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:15.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:15.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:15.185][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-02-03 23:36:15.190][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:15.192][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:15.195][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-02-03 23:36:15.555][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-02-03 23:36:15.876][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:15.879][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-02-03 23:36:15.884][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-02-03 23:36:15.887][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-02-03 23:36:15.889][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:15.891][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:15.892][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:15.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:15.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:15.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:15.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:15.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:15.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:15.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:15.923][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.926][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:15.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:15.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.933][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:15.934][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:15.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.936][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:15.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:15.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.942][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:15.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:15.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.946][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:15.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:15.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:15.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:15.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.956][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:15.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:15.963][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:15.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:15.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:15.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.976][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:15.978][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:15.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.982][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:15.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:15.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:15.992][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:15.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:15.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:15.998][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.000][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:16.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.010][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.022][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.029][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:16.031][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:16.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.033][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:16.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:16.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.040][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:16.041][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:16.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.043][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.045][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:16.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:16.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.050][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:16.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:16.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.054][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:16.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:16.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:16.112][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-02-03 23:36:16.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:16.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:16.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:16.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:16.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:16.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:16.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:16.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:16.149][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-02-03 23:36:16.151][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:16.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-02-03 23:36:16.156][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:16.157][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:16.159][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:16.160][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:16.161][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:16.163][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:16.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:16.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:16.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:16.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:16.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:16.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:16.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:16.185][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-02-03 23:36:16.189][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:16.190][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:16.191][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-02-03 23:36:16.514][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-02-03 23:36:16.829][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:16.833][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-02-03 23:36:16.839][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-02-03 23:36:16.843][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-02-03 23:36:16.845][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:16.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:16.848][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:16.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:16.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:16.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:16.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:16.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:16.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:16.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:16.878][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.882][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:16.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:16.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.888][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:16.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:16.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.892][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.893][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:16.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:16.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.898][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:16.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:16.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.902][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:16.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:16.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.909][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:16.910][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:16.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.912][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:16.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:16.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:16.919][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:16.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.922][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:16.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.928][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:16.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:16.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.931][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.933][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:16.934][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.936][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:16.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:16.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.946][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:16.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:16.954][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:16.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.956][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:16.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:16.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.962][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:16.964][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:16.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:16.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:16.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.977][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:16.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:16.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.984][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.985][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:16.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:16.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:16.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:16.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:16.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:17.039][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-02-03 23:36:17.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:17.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:17.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:17.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:17.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:17.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:17.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:17.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:17.136][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-02-03 23:36:17.138][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:17.140][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-02-03 23:36:17.143][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:17.145][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:17.147][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:17.149][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:17.151][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:17.153][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:17.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:17.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:17.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:17.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:17.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:17.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:17.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:17.171][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-02-03 23:36:17.174][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:17.175][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:17.177][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-02-03 23:36:17.505][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-02-03 23:36:17.821][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:17.825][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-02-03 23:36:17.832][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-02-03 23:36:17.837][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-02-03 23:36:17.840][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:17.843][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:17.844][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:17.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:17.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:17.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:17.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:17.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:17.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:17.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:17.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.874][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:17.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.881][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:17.882][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:17.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.884][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:17.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.892][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:17.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:17.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.895][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:17.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:17.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.902][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:17.903][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:17.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.905][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:17.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:17.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.912][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:17.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:17.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.915][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:17.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:17.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:17.923][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:17.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.926][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.927][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:17.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.931][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:17.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:17.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.938][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:17.940][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:17.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.942][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:17.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:17.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:17.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:17.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.956][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:17.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:17.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.962][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:17.963][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:17.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:17.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:17.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:17.977][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:17.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:17.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:17.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:17.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:17.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:18.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:18.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:18.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:18.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:18.049][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-02-03 23:36:18.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:18.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:18.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:18.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:18.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:18.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:18.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:18.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:18.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:18.091][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-02-03 23:36:18.092][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:18.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-02-03 23:36:18.098][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:18.100][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:18.102][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:18.104][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:18.106][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:18.108][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:18.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:18.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:18.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:18.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:18.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:18.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:18.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:18.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-02-03 23:36:18.138][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:18.139][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:18.141][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-02-03 23:36:18.463][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-02-03 23:36:18.772][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:18.775][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-02-03 23:36:18.779][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-02-03 23:36:18.783][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-02-03 23:36:18.785][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:18.787][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:18.789][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:18.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:18.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:18.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:19.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:19.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:19.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:19.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:19.134][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.137][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.141][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:19.153][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:19.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.167][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:19.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:19.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.174][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:19.176][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:19.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.180][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:19.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:19.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:19.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:19.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.195][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:19.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:19.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.205][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:19.207][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:19.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.210][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:19.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:19.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.220][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:19.222][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:19.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.226][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.228][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:19.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.234][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:19.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.244][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:19.246][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:19.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.249][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:19.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.259][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:19.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:19.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.265][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:19.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:19.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.275][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:19.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:19.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.281][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.283][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:19.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:19.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.291][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:19.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:19.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.296][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.298][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:19.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:19.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:19.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:19.369][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-02-03 23:36:19.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:19.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:19.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:19.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:19.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:19.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:19.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:19.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:19.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:19.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:19.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:19.399][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-02-03 23:36:19.400][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:19.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-02-03 23:36:19.404][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:19.405][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:19.407][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:19.408][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:19.409][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:19.410][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:19.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:19.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:19.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:19.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:19.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:19.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:19.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:19.440][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-02-03 23:36:19.445][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:19.447][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:19.449][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-02-03 23:36:19.789][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-02-03 23:36:20.094][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:20.096][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-02-03 23:36:20.103][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-02-03 23:36:20.108][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-02-03 23:36:20.111][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:20.113][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:20.116][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:20.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:20.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:20.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:20.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:20.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:20.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:20.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:20.143][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.148][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.158][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:20.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:20.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.164][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.166][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:20.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:20.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.174][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:20.176][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:20.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.179][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:20.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:20.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:20.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.195][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:20.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:20.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:20.216][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:20.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.218][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:20.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:20.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.225][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:20.226][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:20.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.228][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.230][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:20.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.234][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.235][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:20.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:20.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:20.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.244][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:20.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:20.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.251][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:20.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:20.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.256][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:20.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:20.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:20.264][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:20.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.266][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:20.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:20.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.273][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:20.275][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:20.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.277][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:20.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:20.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:20.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:20.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:20.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:20.334][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-02-03 23:36:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:20.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:20.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:20.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:20.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:20.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:20.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:20.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:20.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:20.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:20.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:20.370][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-02-03 23:36:20.371][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:20.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-02-03 23:36:20.375][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:20.376][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:20.377][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:20.379][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:20.380][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:20.381][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:20.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:20.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:20.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:20.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:20.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:20.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:20.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:20.410][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-02-03 23:36:20.413][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:20.414][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:20.416][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-02-03 23:36:20.742][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-02-03 23:36:21.046][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:21.048][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-02-03 23:36:21.053][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-02-03 23:36:21.057][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-02-03 23:36:21.059][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:21.061][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:21.062][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:21.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:21.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:21.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:21.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:21.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:21.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:21.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:21.087][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.089][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.098][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:21.099][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:21.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.102][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.103][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:21.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:21.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.108][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:21.110][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:21.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.112][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:21.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:21.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.118][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:21.120][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:21.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.123][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:21.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:21.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.132][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:21.133][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:21.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.136][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:21.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:21.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:21.146][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:21.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.150][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.152][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:21.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.158][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.160][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:21.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:21.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:21.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.183][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:21.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.189][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:21.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:21.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:21.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:21.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.204][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:21.206][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:21.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.208][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.210][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:21.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:21.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.215][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:21.216][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:21.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.218][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.220][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:21.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:21.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:21.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:21.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:21.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:21.283][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-02-03 23:36:21.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:21.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:21.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:21.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:21.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:21.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:21.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:21.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:21.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:21.328][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-02-03 23:36:21.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:21.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-02-03 23:36:21.333][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:21.334][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:21.336][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:21.337][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:21.338][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:21.339][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:21.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:21.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:21.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:21.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:21.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:21.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:21.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:21.381][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-02-03 23:36:21.384][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:21.385][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:21.387][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-02-03 23:36:21.699][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-02-03 23:36:21.999][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:22.003][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-02-03 23:36:22.007][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-02-03 23:36:22.011][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-02-03 23:36:22.013][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:22.015][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:22.017][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:22.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:22.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:22.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:22.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:22.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:22.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:22.036][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[2025-02-03 23:36:22.040][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.042][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.045][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:22.056][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:22.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.062][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:22.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:22.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.069][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:22.071][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:22.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.074][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.084][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:22.086][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:22.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.089][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.091][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:22.093][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:22.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.097][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:22.101][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:22.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.104][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.106][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:22.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.111][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.113][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:22.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.118][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:22.120][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:22.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.122][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:22.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:22.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.131][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:22.133][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:22.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.137][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:22.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:22.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.148][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:22.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:22.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.153][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:22.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:22.167][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:22.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.181][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:22.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:22.231][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-02-03 23:36:22.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:22.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:22.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:22.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:22.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:22.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:22.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:22.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:22.268][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-02-03 23:36:22.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:22.271][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-02-03 23:36:22.272][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:22.274][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:22.275][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:22.276][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:22.278][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:22.279][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:22.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:22.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:22.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:22.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:22.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:22.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:22.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:22.305][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-02-03 23:36:22.308][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:22.310][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:22.311][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-02-03 23:36:22.624][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-02-03 23:36:22.934][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:22.937][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-02-03 23:36:22.941][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-02-03 23:36:22.945][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-02-03 23:36:22.947][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:22.949][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:22.950][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:22.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:22.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:22.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:22.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:22.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:22.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:22.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:22.983][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.985][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.987][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:22.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:22.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:22.994][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:22.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:22.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:22.998][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:23.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:23.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.005][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:23.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:23.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.009][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:23.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:23.017][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:23.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.020][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.021][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.022][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.025][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:23.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:23.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.030][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.032][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:23.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.036][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.037][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:23.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.042][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:23.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:23.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.047][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:23.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:23.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.054][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:23.056][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:23.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:23.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:23.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.066][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:23.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:23.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.072][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:23.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:23.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.083][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:23.085][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:23.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.088][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:23.157][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-02-03 23:36:23.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:23.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:23.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:23.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:23.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:23.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:23.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:23.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:23.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:23.196][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-02-03 23:36:23.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:23.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-02-03 23:36:23.201][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:23.203][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:23.204][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:23.205][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:23.207][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:23.208][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:23.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:23.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:23.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:23.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:23.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:23.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:23.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:23.237][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-02-03 23:36:23.240][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:23.241][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:23.243][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-02-03 23:36:23.586][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-02-03 23:36:23.901][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:23.904][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-02-03 23:36:23.908][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-02-03 23:36:23.912][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-02-03 23:36:23.915][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:23.916][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:23.918][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:23.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:23.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:23.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:23.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:23.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:23.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:23.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:23.942][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.943][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.946][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:23.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:23.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.952][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:23.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:23.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.957][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.962][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:23.963][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:23.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.965][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:23.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:23.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.979][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:23.981][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:23.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.983][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:23.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.993][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:23.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:23.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:24.001][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:24.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.003][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.004][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:24.006][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.008][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.009][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:24.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.014][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.016][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.018][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:24.025][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:24.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.028][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:24.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:24.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.034][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:24.036][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:24.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.039][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.041][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:24.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.048][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:24.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:24.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.054][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:24.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:24.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:24.119][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-02-03 23:36:24.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:24.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:24.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:24.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:24.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:24.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:24.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:24.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:24.161][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-02-03 23:36:24.162][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:24.164][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-02-03 23:36:24.166][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:24.168][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:24.169][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:24.170][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:24.172][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:24.173][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:24.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:24.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:24.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:24.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:24.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:24.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:24.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:24.199][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-02-03 23:36:24.202][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:24.203][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:24.205][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-02-03 23:36:24.530][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-02-03 23:36:24.843][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:24.846][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-02-03 23:36:24.850][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-02-03 23:36:24.856][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-02-03 23:36:24.859][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:24.862][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:24.865][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:24.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:24.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:24.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:24.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:24.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:24.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:24.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:24.891][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.892][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:24.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:24.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.901][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:24.902][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:24.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.904][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:24.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:24.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.911][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:24.912][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:24.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.915][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:24.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.921][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:24.922][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:24.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.925][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:24.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:24.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.931][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:24.932][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:24.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.935][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:24.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.941][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:24.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:24.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.957][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:24.959][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.961][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.962][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:24.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:24.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.967][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.971][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:24.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.978][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:24.979][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:24.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:24.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:24.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:24.989][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:24.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.992][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.993][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:24.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:24.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:24.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:24.998][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:24.999][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:25.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.002][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:25.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:25.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:25.057][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-02-03 23:36:25.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:25.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:25.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:25.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:25.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:25.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:25.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:25.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:25.093][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-02-03 23:36:25.094][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:25.096][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-02-03 23:36:25.103][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:25.105][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:25.106][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:25.108][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:25.109][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:25.110][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:25.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:25.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:25.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:25.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:25.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:25.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:25.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:25.139][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-02-03 23:36:25.144][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:25.145][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:25.148][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-02-03 23:36:25.467][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-02-03 23:36:25.781][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:25.783][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-02-03 23:36:25.788][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-02-03 23:36:25.792][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-02-03 23:36:25.794][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:25.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:25.797][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:25.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:25.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:25.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:25.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:25.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:25.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:25.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:25.837][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.841][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.847][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:25.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:25.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.851][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:25.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.857][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:25.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:25.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.861][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:25.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:25.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.867][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:25.868][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:25.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.871][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:25.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:25.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:25.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:25.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.880][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:25.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:25.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:25.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:25.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.890][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.892][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:25.893][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.895][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.897][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:25.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:25.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:25.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.905][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.912][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:25.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:25.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.924][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:25.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:25.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:25.933][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:25.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.935][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.936][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:25.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:25.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:25.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.945][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:25.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:25.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:25.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:25.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:25.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:25.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:26.002][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-02-03 23:36:26.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:26.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:26.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:26.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:26.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:26.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:26.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:26.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:26.031][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-02-03 23:36:26.033][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:26.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-02-03 23:36:26.036][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:26.038][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:26.039][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:26.040][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:26.042][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:26.043][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:26.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:26.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:26.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:26.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:26.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:26.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:26.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:26.064][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-02-03 23:36:26.068][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:26.074][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:26.076][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-02-03 23:36:26.396][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-02-03 23:36:26.713][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:26.716][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-02-03 23:36:26.720][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-02-03 23:36:26.724][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-02-03 23:36:26.727][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:26.728][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:26.730][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:26.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:26.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:26.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:26.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:26.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:26.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:26.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:26.755][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.757][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.759][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.766][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:26.767][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:26.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.769][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.771][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:26.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.776][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:26.778][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:26.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.780][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:26.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:26.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.787][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:26.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:26.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.792][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:26.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:26.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.802][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:26.804][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:26.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.808][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:26.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:26.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:26.820][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:26.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.824][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.826][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:26.828][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.832][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.834][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:26.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.842][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:26.844][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:26.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.848][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:26.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:26.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.858][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:26.860][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:26.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.864][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:26.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:26.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.872][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:26.873][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:26.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.875][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.877][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.882][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:26.883][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:26.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.886][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.887][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:26.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:26.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:26.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:26.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:26.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:26.950][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-02-03 23:36:26.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:26.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:26.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:26.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:26.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:26.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:26.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:26.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:26.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:26.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:26.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:26.987][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-02-03 23:36:26.988][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:26.990][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-02-03 23:36:26.992][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:26.994][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:26.995][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:26.996][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:26.998][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:26.999][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:27.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:27.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:27.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:27.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:27.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:27.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:27.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:27.024][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-02-03 23:36:27.027][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:27.028][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:27.030][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-02-03 23:36:27.351][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-02-03 23:36:27.662][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:27.665][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-02-03 23:36:27.669][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-02-03 23:36:27.673][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-02-03 23:36:27.675][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:27.677][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:27.678][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:27.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:27.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:27.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:27.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:27.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:27.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:27.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:27.710][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.714][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.721][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:27.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:27.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.725][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.726][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:27.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:27.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.731][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:27.732][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:27.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.735][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:27.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:27.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:27.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:27.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.745][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:27.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.752][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:27.753][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:27.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:27.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:27.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:27.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:27.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.765][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.767][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:27.768][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.770][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.772][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:27.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.779][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:27.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:27.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.785][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:27.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:27.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.795][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:27.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:27.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.800][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.811][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:27.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:27.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.816][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.819][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:27.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:27.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.826][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:27.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:27.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.832][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:27.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:27.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:27.917][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-02-03 23:36:27.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:27.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:27.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:27.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:27.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:27.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:27.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:27.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:27.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:27.947][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-02-03 23:36:27.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:27.950][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-02-03 23:36:27.952][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:27.953][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:27.954][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:27.956][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:27.957][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:27.958][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:27.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:27.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:27.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:27.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:27.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:27.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:27.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:27.990][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-02-03 23:36:27.994][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:27.996][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:27.999][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-02-03 23:36:28.329][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-02-03 23:36:28.634][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:28.637][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-02-03 23:36:28.641][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-02-03 23:36:28.645][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-02-03 23:36:28.647][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:28.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:28.650][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:28.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:28.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:28.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:28.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:28.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:28.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:28.681][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[2025-02-03 23:36:28.685][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.690][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.697][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:28.698][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:28.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.706][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.710][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:28.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:28.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:28.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:28.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.720][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:28.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:28.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:28.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:28.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:28.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:28.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.737][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:28.738][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:28.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.740][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:28.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.747][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:28.748][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:28.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.751][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.752][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:28.754][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.756][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.758][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.766][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:28.768][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:28.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.771][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:28.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:28.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.781][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:28.784][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:28.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.787][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.797][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:28.799][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:28.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.802][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:28.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:28.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:28.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:28.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.813][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:28.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:28.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:28.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:28.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:28.874][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-02-03 23:36:28.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:28.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:28.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:28.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:28.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:28.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:28.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:28.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:28.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:28.906][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-02-03 23:36:28.907][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:28.909][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-02-03 23:36:28.911][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:28.912][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:28.914][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:28.915][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:28.916][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:28.917][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:28.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:28.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:28.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:28.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:28.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:28.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:28.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:28.935][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-02-03 23:36:28.938][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:28.939][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:28.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-02-03 23:36:29.315][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-02-03 23:36:29.615][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:29.618][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-02-03 23:36:29.622][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-02-03 23:36:29.626][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-02-03 23:36:29.628][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:29.630][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:29.632][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:29.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:29.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:29.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:29.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:29.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:29.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:29.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:29.652][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.653][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.655][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.662][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:29.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:29.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.666][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.667][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:29.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.672][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:29.674][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:29.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.676][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.678][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:29.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:29.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.683][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:29.684][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:29.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.686][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:29.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:29.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:29.703][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:29.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.706][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:29.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:29.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.713][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:29.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:29.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.717][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.718][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:29.719][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.722][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.723][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.728][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:29.730][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:29.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.732][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:29.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:29.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.739][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:29.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:29.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.742][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:29.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:29.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.749][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:29.750][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:29.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.752][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:29.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:29.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.763][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.764][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:29.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:29.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:29.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:29.819][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-02-03 23:36:29.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:29.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:29.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:29.877][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:29.881][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:29.883][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:29.885][private$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[2025-02-03 23:36:30.411][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[2025-02-03 23:36:30.900][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2025-02-03 23:36:30.902][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-02-03 23:36:30.905][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-02-03 23:36:30.910][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-02-03 23:36:30.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:30.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:30.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:30.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:30.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:30.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:30.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:30.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:30.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:30.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:30.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:30.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:30.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:30.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:30.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:30.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:30.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:30.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:31.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:31.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:31.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:31.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:31.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:31.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:31.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:31.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:31.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:31.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:31.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:31.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:31.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:31.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:31.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:31.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:31.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:31.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:31.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:31.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:31.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:31.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:31.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:31.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:31.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:31.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:31.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:31.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:31.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:31.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:31.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:31.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:32.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:32.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:32.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:32.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:32.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:32.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:32.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:32.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:32.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:32.943][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:32.947][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:32.949][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:32.951][private$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[2025-02-03 23:36:33.259][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[2025-02-03 23:36:33.562][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:33.566][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-02-03 23:36:33.571][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-02-03 23:36:33.577][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[2025-02-03 23:36:33.582][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:33.584][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:33.587][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:33.891][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:34.194][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:34.198][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-02-03 23:36:34.206][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-02-03 23:36:34.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:34.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:34.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:34.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:34.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:34.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:34.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:34.242][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-02-03 23:36:34.244][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:34.248][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-02-03 23:36:34.250][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:34.252][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:34.254][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:34.256][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:34.258][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:34.260][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:34.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:34.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:34.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:34.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:34.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:34.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:34.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:34.290][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-02-03 23:36:34.295][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:34.297][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:34.298][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-02-03 23:36:34.625][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-02-03 23:36:34.942][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:34.945][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-02-03 23:36:34.950][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-02-03 23:36:34.954][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-02-03 23:36:34.957][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:34.959][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:34.962][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:34.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:34.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:34.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:34.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:34.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:34.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:34.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:34.994][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:34.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:34.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:34.998][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.004][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:35.006][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:35.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.008][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.009][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:35.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:35.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.014][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:35.016][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:35.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.018][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:35.026][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:35.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.029][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:35.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.035][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:35.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:35.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.039][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:35.047][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:35.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.049][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.056][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:35.057][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:35.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:35.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:35.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.067][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.070][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.077][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:35.078][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.080][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:35.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.087][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:35.088][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:35.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.092][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:35.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:35.099][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:35.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.101][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:35.174][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-02-03 23:36:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:35.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:35.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:35.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:35.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:35.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:35.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:35.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:35.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:35.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:35.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:35.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:35.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:35.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:35.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:35.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:35.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:35.252][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-02-03 23:36:35.253][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:35.255][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-02-03 23:36:35.257][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:35.258][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:35.260][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:35.261][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:35.262][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:35.263][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:35.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:35.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:35.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:35.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:35.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:35.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:35.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:35.287][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-02-03 23:36:35.290][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:35.292][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:35.293][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-02-03 23:36:35.634][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-02-03 23:36:35.942][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:35.945][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-02-03 23:36:35.950][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-02-03 23:36:35.953][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-02-03 23:36:35.961][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:35.965][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:35.967][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:35.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:35.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:35.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:35.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:35.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:35.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:35.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:35.997][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:35.999][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.001][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.011][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:36.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:36.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.017][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:36.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.027][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:36.029][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:36.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.033][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:36.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.043][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:36.045][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:36.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.049][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:36.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:36.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:36.061][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:36.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.064][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.075][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:36.077][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:36.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.080][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.083][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:36.085][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:36.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.088][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.091][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:36.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.104][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.114][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:36.116][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:36.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.120][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:36.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:36.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.130][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:36.132][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:36.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.135][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.145][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:36.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:36.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.151][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:36.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:36.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:36.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:36.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:36.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.248][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-02-03 23:36:36.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.338][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:36.342][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:36.344][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:36.346][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:36.349][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 23:36:36.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:36.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:36.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:36.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:36.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:36.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:36.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:36.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:36.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:36.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:36.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:36.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.511][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:37.516][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:37.519][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 23:36:37.522][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:37.534][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 23:36:37.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:37.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:37.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:37.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:37.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:37.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:37.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:37.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:37.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:37.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:37.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:37.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:38.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:38.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.633][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:38.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:38.667][biodb::testThat]
biodb.INFO [2025-02-03 23:36:38.669][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-02-03 23:36:38.672][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:38.674][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:38.678][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 23:36:38.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 23:36:38.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:38.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:38.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:38.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:38.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:38.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:38.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:38.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:38.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:38.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:38.740][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:38.744][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:38.745][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:38.747][private$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[2025-02-03 23:36:39.051][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[2025-02-03 23:36:39.353][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:39.357][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-02-03 23:36:39.364][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-02-03 23:36:39.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:39.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:39.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:39.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:39.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:39.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:39.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:39.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:39.415][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[2025-02-03 23:36:39.421][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:39.422][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:39.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:39.728][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:40.028][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:40.031][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-02-03 23:36:40.037][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-02-03 23:36:40.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:40.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:40.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:40.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:40.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:40.116][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:40.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:40.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.155][private$selectFields]
biodb.TRACE[2025-02-03 23:36:40.157][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:40.159][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:40.161][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.170][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.176][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.179][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.184][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.185][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 23:36:40.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:40.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.257][private$selectFields]
biodb.TRACE[2025-02-03 23:36:40.259][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:40.260][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:40.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.269][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.271][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.276][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.280][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.287][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.289][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:40.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.309][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:40.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.345][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.346][private$selectFields]
biodb.TRACE[2025-02-03 23:36:40.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:40.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:40.352][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.361][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.366][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.369][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:40.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.374][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.375][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:40.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.391][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 23:36:40.393][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:40.394][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:40.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:40.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:40.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:40.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:40.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:40.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:40.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:40.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:40.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:40.539][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:40.543][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:40.545][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:40.547][private$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[2025-02-03 23:36:40.857][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[2025-02-03 23:36:41.161][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:41.165][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-02-03 23:36:41.171][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-02-03 23:36:41.177][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[2025-02-03 23:36:41.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:41.182][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:41.184][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:41.512][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:41.830][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:41.833][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-02-03 23:36:41.839][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-02-03 23:36:41.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:41.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:41.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:41.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:41.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:41.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:41.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:41.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:41.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:41.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:41.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:41.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:41.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:41.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:41.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:41.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:41.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:41.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:41.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:41.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:41.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:41.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:41.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:41.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:41.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:41.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:41.990][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:42.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.044][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.045][private$selectFields]
biodb.TRACE[2025-02-03 23:36:42.046][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:42.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:42.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.054][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.060][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.062][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.067][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.069][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:42.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.090][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 23:36:42.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.167][private$selectFields]
biodb.TRACE[2025-02-03 23:36:42.168][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:42.169][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:42.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.173][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.175][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.180][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.191][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.196][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.197][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:42.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.216][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:42.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.258][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.260][private$selectFields]
biodb.TRACE[2025-02-03 23:36:42.261][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:42.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:42.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.266][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.272][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.279][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.282][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.288][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.290][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:42.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.307][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 23:36:42.308][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:42.309][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:42.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:42.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:42.607][biodb::testThat]
biodb.INFO [2025-02-03 23:36:42.609][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-02-03 23:36:42.610][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:42.611][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:42.615][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 23:36:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 23:36:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:42.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:42.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:42.679][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:42.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 23:36:42.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:42.685][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 23:36:42.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:42.737][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:42.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:42.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 23:36:42.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:42.753][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 23:36:42.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:42.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:42.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:42.839][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:42.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.886][private$selectFields]
biodb.TRACE[2025-02-03 23:36:42.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:42.889][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:42.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.899][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.907][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.911][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.918][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.920][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:42.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.946][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 23:36:42.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:42.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:42.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:42.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:42.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:42.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:42.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.984][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.985][private$selectFields]
biodb.TRACE[2025-02-03 23:36:42.986][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:42.987][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:42.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:42.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:42.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:42.996][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:42.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.003][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.015][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.016][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:43.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.073][private$selectFields]
biodb.TRACE[2025-02-03 23:36:43.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:43.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:43.077][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.082][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.087][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.089][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.094][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.095][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:43.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.111][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 23:36:43.113][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:43.114][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:43.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:43.202][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:43.207][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:43.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-03 23:36:43.213][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:43.216][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-03 23:36:43.222][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:43.228][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:43.230][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-03 23:36:43.233][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:43.240][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-03 23:36:43.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:43.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.390][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:43.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.430][private$selectFields]
biodb.TRACE[2025-02-03 23:36:43.431][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:43.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:43.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.438][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.440][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.444][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.448][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.456][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.458][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.483][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 23:36:43.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.522][private$selectFields]
biodb.TRACE[2025-02-03 23:36:43.523][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:43.524][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:43.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.530][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.535][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.538][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.542][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.560][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:43.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.595][private$selectFields]
biodb.TRACE[2025-02-03 23:36:43.596][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:43.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:43.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.603][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.604][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.605][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.607][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.610][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:43.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.615][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.617][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:43.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:43.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.643][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 23:36:43.645][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:43.647][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:43.668][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:43.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:43.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:43.694][biodb::testThat]
biodb.INFO [2025-02-03 23:36:43.696][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-02-03 23:36:43.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:43.698][biodb::testThat]
biodb.TRACE[2025-02-03 23:36:43.702][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 23:36:43.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 23:36:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:43.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:43.763][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:43.764][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 23:36:43.766][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:43.768][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 23:36:43.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.901][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:43.905][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:43.906][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 23:36:43.908][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:43.910][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 23:36:43.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:43.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:43.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:43.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:43.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:43.978][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:43.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:43.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:43.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:43.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:43.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:43.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:43.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.010][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.011][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.012][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.013][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.015][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.016][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.017][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.019][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.024][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.027][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.038][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.040][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.063][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 23:36:44.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.101][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.102][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.103][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.104][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.109][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.114][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.116][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.121][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.137][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:44.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.162][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.163][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.164][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.165][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.167][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.168][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.171][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.176][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.178][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.183][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.184][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.200][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 23:36:44.201][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:44.202][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:44.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:44.287][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:44.290][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:44.292][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-03 23:36:44.293][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:44.296][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-03 23:36:44.299][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:44.303][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:44.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-03 23:36:44.306][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:44.308][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-03 23:36:44.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:44.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:44.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:44.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:44.418][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 23:36:44.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.454][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.455][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.457][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.458][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.463][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.465][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.467][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.470][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.474][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.476][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.492][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 23:36:44.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.528][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.529][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.530][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.536][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.546][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.553][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.570][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 23:36:44.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:44.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.602][private$selectFields]
biodb.TRACE[2025-02-03 23:36:44.603][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 23:36:44.604][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 23:36:44.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.610][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.615][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.617][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 23:36:44.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.622][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.623][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 23:36:44.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:44.638][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 23:36:44.639][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 23:36:44.641][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 23:36:44.691][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:44.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 23:36:44.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:44.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:44.713][biodb::testThat]
biodb.INFO [2025-02-03 23:36:44.714][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-02-03 23:36:44.715][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:44.717][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:44.719][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-03 23:36:44.720][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:44.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-03 23:36:44.724][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:44.725][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:44.726][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:44.728][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:44.729][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:44.730][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:44.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:44.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:44.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:44.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:44.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:44.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:44.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:44.749][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-02-03 23:36:44.752][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:44.753][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:44.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-02-03 23:36:45.064][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-02-03 23:36:45.371][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:45.374][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-02-03 23:36:45.378][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-02-03 23:36:45.382][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-02-03 23:36:45.384][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:45.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:36:45.387][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:45.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:45.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:45.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:45.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:45.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:45.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:45.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:45.448][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.450][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.452][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.458][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:45.460][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:45.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.462][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.463][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:45.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:45.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.467][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.469][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:45.470][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:45.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.472][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.474][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:45.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:45.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.478][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.480][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:45.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:45.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.484][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.485][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:45.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:45.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.489][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.491][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:45.492][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:45.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.494][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.496][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:45.497][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:45.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.499][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.501][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:45.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:45.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.504][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.506][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:45.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:45.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.510][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:45.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:45.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:45.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:45.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:45.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:45.620][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-02-03 23:36:45.622][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-03 23:36:45.646][biodb::testThat]
biodb.INFO [2025-02-03 23:36:45.647][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-03 23:36:45.649][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:45.650][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:45.670][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-02-03 23:36:45.671][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-02-03 23:36:45.673][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-02-03 23:36:45.675][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-02-03 23:36:45.676][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-02-03 23:36:45.679][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:45.681][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:45.683][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:45.685][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:45.687][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:45.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:45.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:45.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:45.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:45.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:45.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:45.716][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[2025-02-03 23:36:45.717][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-02-03 23:36:45.728][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:45.729][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:45.731][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-02-03 23:36:46.037][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-02-03 23:36:46.342][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:46.345][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-02-03 23:36:46.349][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-02-03 23:36:46.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:46.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:46.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:46.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:46.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:46.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:46.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:46.373][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-02-03 23:36:46.376][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:46.377][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:46.379][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-02-03 23:36:46.709][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-02-03 23:36:47.018][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:47.021][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-02-03 23:36:47.026][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-02-03 23:36:47.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:47.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:47.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:47.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:47.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:47.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:47.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:47.050][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-02-03 23:36:47.054][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:47.055][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:47.056][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-02-03 23:36:47.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-02-03 23:36:47.669][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:47.672][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-02-03 23:36:47.676][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-02-03 23:36:47.680][private$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[2025-02-03 23:36:47.683][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:36:47.685][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-02-03 23:36:47.686][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-02-03 23:36:47.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:47.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:47.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:47.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:47.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:47.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:47.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:47.703][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.705][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.707][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.716][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:47.718][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:47.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.722][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.725][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:47.727][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:47.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.733][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:47.735][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:47.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.738][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.741][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.743][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.747][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.749][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.751][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.757][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:47.759][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:47.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.763][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.767][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.771][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.774][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:47.776][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:47.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.779][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:47.784][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:47.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.788][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.790][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:47.792][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:47.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.796][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:47.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:47.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:47.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:47.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:47.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:47.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:47.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:47.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:47.878][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.882][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:47.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.893][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:47.895][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:47.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.899][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.901][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:47.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.910][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:47.912][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:47.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.916][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:47.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:47.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.926][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:47.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:47.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.932][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:47.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:47.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.948][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:47.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.958][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.960][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.964][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.966][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:47.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.974][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:47.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:47.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.984][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:47.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:47.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.991][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.992][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:47.995][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:47.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:47.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.002][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:48.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:48.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.005][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:48.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:48.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.013][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:48.014][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:48.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.016][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.018][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:48.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:48.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:48.024][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:48.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.027][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:48.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:48.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:48.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:48.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:48.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:48.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:48.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:48.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:36:48.300][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.302][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.305][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.313][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:48.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:48.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.318][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.320][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:36:48.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:36:48.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.326][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:48.328][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:48.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.330][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:36:48.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:36:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.338][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:48.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:48.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.341][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:36:48.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:36:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.348][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:48.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:48.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.352][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:36:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:36:48.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:48.372][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:48.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.375][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.376][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:48.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:36:48.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.382][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:48.383][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:48.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.386][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.387][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:36:48.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:36:48.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:48.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:48.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.397][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:48.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:48.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:48.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:48.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.407][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:48.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:48.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:48.416][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:48.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.418][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:36:48.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:36:48.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:48.427][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:48.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.429][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.431][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:36:48.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:36:48.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:36:48.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:48.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:36:48.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:36:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:48.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:36:48.534][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-02-03 23:36:48.536][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-03 23:36:48.538][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-02-03 23:36:48.568][biodb::testThat]
biodb.INFO [2025-02-03 23:36:48.569][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-02-03 23:36:48.571][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:48.572][biodb::testThat]
biodb.INFO [2025-02-03 23:36:48.602][biodb::testThat]
biodb.INFO [2025-02-03 23:36:48.604][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-02-03 23:36:48.605][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:48.606][biodb::testThat]
biodb.INFO [2025-02-03 23:36:48.623][biodb::testThat]
biodb.INFO [2025-02-03 23:36:48.625][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-02-03 23:36:48.626][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:48.627][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:48.631][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:48.635][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:48.636][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:48.638][private$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[2025-02-03 23:36:49.074][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[2025-02-03 23:36:49.491][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:49.494][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-02-03 23:36:49.499][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-02-03 23:36:49.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:36:49.557][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:36:49.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:49.559][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:36:49.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:49.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:36:49.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:36:49.564][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 23:36:49.566][biodb::testThat]
biodb.INFO [2025-02-03 23:36:49.568][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-02-03 23:36:49.569][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:49.570][biodb::testThat]
biodb.ERROR[2025-02-03 23:36:49.590][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-02-03 23:36:49.607][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-02-03 23:36:49.629][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 23:36:49.631][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 23:36:49.632][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 23:36:49.633][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 23:36:49.635][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:49.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:49.637][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:49.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:49.639][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 23:36:49.651][biodb::testContext]
biodb.INFO [2025-02-03 23:36:49.652][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:49.653][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-02-03 23:36:49.655][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:49.656][biodb::testContext]
biodb.INFO [2025-02-03 23:36:49.658][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:49.661][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:49.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:49.667][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 23:36:49.669][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.673][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 23:36:49.674][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.679][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 23:36:49.680][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.684][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 23:36:49.685][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 23:36:49.687][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 23:36:49.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.691][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 23:36:49.692][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 23:36:49.693][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.698][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 23:36:49.699][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 23:36:49.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.703][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 23:36:49.704][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 23:36:49.706][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 23:36:49.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.710][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 23:36:49.711][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.715][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 23:36:49.717][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 23:36:49.718][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 23:36:49.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.728][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:49.731][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 23:36:49.733][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 23:36:49.734][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 23:36:49.735][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 23:36:49.736][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 23:36:49.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.740][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[2025-02-03 23:36:49.741][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 23:36:49.742][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 23:36:49.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.747][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 23:36:49.748][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 23:36:49.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.751][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[2025-02-03 23:36:49.752][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 23:36:49.753][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 23:36:49.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.758][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 23:36:49.759][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 23:36:49.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.764][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 23:36:49.765][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 23:36:49.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.769][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:49.771][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 23:36:49.775][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 23:36:49.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.783][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 23:36:49.784][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 23:36:49.787][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 23:36:49.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.793][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 23:36:49.795][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.797][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 23:36:49.798][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.800][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:49.801][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.802][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.803][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.805][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.806][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:49.807][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:49.808][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.810][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 23:36:49.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:49.812][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.813][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.815][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:49.815][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:49.815][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:49.815][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:49.815][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:49.816][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:49.817][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.819][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:49.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.823][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.824][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.825][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:49.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:49.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.829][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.830][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 23:36:49.832][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.833][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:49.835][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.836][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:49.837][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.838][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.839][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.841][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.842][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:49.843][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:49.844][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.846][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 23:36:49.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:49.848][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.849][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.851][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:49.851][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:49.851][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:49.851][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:49.851][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:49.853][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:49.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.857][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:49.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.860][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.861][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.862][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.863][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:49.864][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:49.865][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.867][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.868][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 23:36:49.870][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.871][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 23:36:49.873][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.874][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:49.875][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.876][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.878][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.879][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.880][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:49.881][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:49.883][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.884][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 23:36:49.885][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:49.886][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.887][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.889][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.890][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:49.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.892][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.893][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:49.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.896][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.897][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.899][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.901][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:49.903][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:49.905][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.907][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.909][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 23:36:49.913][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.915][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:49.917][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.919][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:49.921][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.923][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.925][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.927][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.929][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:49.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:49.934][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.936][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 23:36:49.938][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:49.940][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.942][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:49.943][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.945][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:49.947][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.949][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.951][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:49.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:49.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:49.957][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:49.959][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.961][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:49.962][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:49.964][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:49.966][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:49.969][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:49.971][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:49.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:49.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:49.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:49.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:49.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:49.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:49.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:49.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:49.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.007][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[2025-02-03 23:36:50.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.097][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[2025-02-03 23:36:50.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.108][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 23:36:50.110][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 23:36:50.113][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 23:36:50.115][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 23:36:50.118][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:50.121][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 23:36:50.123][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:50.126][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:50.128][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 23:36:50.131][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 23:36:50.133][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:50.135][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 23:36:50.137][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:50.138][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:50.140][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 23:36:50.141][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 23:36:50.143][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 23:36:50.145][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 23:36:50.146][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:50.148][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 23:36:50.151][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 23:36:50.153][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 23:36:50.156][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 23:36:50.158][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 23:36:50.161][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 23:36:50.163][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 23:36:50.166][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 23:36:50.169][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 23:36:50.171][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 23:36:50.174][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 23:36:50.176][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 23:36:50.179][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 23:36:50.181][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 23:36:50.184][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 23:36:50.186][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 23:36:50.188][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 23:36:50.191][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 23:36:50.193][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 23:36:50.196][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 23:36:50.198][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 23:36:50.200][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 23:36:50.203][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 23:36:50.205][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 23:36:50.208][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 23:36:50.210][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 23:36:50.212][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 23:36:50.215][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 23:36:50.217][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 23:36:50.219][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 23:36:50.222][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 23:36:50.224][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 23:36:50.226][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 23:36:50.229][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 23:36:50.231][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 23:36:50.234][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 23:36:50.236][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 23:36:50.239][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 23:36:50.242][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 23:36:50.245][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 23:36:50.248][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 23:36:50.260][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 23:36:50.263][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 23:36:50.265][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 23:36:50.268][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 23:36:50.270][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 23:36:50.273][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 23:36:50.275][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:50.278][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:50.280][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 23:36:50.282][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 23:36:50.285][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 23:36:50.287][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 23:36:50.290][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 23:36:50.292][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 23:36:50.295][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 23:36:50.297][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 23:36:50.299][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 23:36:50.302][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 23:36:50.304][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 23:36:50.307][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 23:36:50.309][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 23:36:50.312][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 23:36:50.314][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 23:36:50.317][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 23:36:50.320][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:50.322][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:50.324][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.327][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.339][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.DEBUG[2025-02-03 23:36:50.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.412][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.DEBUG[2025-02-03 23:36:50.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.427][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[2025-02-03 23:36:50.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:50.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:50.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:50.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:50.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:50.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:50.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:50.456][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[2025-02-03 23:36:50.459][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:50.461][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 23:36:50.463][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:50.464][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 23:36:50.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:50.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:50.468][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:50.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:50.470][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:50.471][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 23:36:50.472][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 23:36:50.473][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:50.475][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:50.476][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 23:36:50.477][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 23:36:50.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 23:36:50.480][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:50.481][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:50.481][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:50.481][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:50.482][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 23:36:50.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:50.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:50.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:50.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:50.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:50.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:50.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:50.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 23:36:50.491][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:50.492][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:50.493][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:50.494][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 23:36:50.494][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 23:36:50.496][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:50.498][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:50.499][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 23:36:50.501][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:50.503][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:50.504][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:50.508][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 23:36:50.509][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 23:36:50.510][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 23:36:50.512][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 23:36:50.514][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:50.515][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:50.516][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 23:36:50.517][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 23:36:50.519][biodb::testThat]
biodb.INFO [2025-02-03 23:36:50.520][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-02-03 23:36:50.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:50.523][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:50.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 23:36:50.537][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:50.539][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:50.542][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-02-03 23:36:50.832][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-02-03 23:36:51.253][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:51.256][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-02-03 23:36:51.260][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-02-03 23:36:51.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:51.269][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:51.271][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:51.273][private$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[2025-02-03 23:36:51.572][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[2025-02-03 23:36:51.882][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:51.885][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-02-03 23:36:51.890][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-02-03 23:36:51.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:51.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:51.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:51.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:51.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:51.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:51.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:51.913][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[2025-02-03 23:36:51.917][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:51.918][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:51.920][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:52.224][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:52.533][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:52.537][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-02-03 23:36:52.543][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-02-03 23:36:52.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:52.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:52.627][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:52.630][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:52.632][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-03 23:36:52.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:52.636][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-03 23:36:52.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:52.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:52.669][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:52.670][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-03 23:36:52.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:52.888][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-03 23:36:52.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:52.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.932][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[2025-02-03 23:36:52.937][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:52.942][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:52.945][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-03 23:36:52.947][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:52.952][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-03 23:36:52.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:52.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:52.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:52.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:52.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:52.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:52.979][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:52.985][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:52.987][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-03 23:36:52.990][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:52.993][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-03 23:36:52.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:52.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:53.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:53.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:53.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:53.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:53.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:53.019][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:53.024][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:53.026][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:53.030][private$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[2025-02-03 23:36:53.339][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[2025-02-03 23:36:53.635][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:53.638][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-02-03 23:36:53.643][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-02-03 23:36:53.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:53.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:53.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:53.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:53.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:53.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:53.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 23:36:53.687][biodb::testThat]
biodb.INFO [2025-02-03 23:36:53.689][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-02-03 23:36:53.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:53.693][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:53.699][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[2025-02-03 23:36:53.706][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:53.708][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:53.712][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:54.117][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:54.434][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:54.437][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-02-03 23:36:54.442][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-02-03 23:36:54.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:54.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:54.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:54.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:54.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:54.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:54.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:54.465][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:54.470][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:54.471][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:54.474][private$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[2025-02-03 23:36:54.790][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[2025-02-03 23:36:55.103][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:55.106][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-02-03 23:36:55.112][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-02-03 23:36:55.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:55.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 23:36:55.142][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 23:36:55.145][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 23:36:55.147][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 23:36:55.149][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 23:36:55.151][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.155][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.158][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 23:36:55.168][biodb::testContext]
biodb.INFO [2025-02-03 23:36:55.170][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:55.172][biodb::testContext] Test context - Test web services
biodb.INFO [2025-02-03 23:36:55.174][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:55.176][biodb::testContext]
biodb.INFO [2025-02-03 23:36:55.181][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:55.184][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:55.193][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:55.195][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 23:36:55.198][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.205][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 23:36:55.207][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.214][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 23:36:55.216][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.223][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 23:36:55.225][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 23:36:55.227][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 23:36:55.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.232][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 23:36:55.233][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 23:36:55.234][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.239][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 23:36:55.240][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 23:36:55.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.243][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[2025-02-03 23:36:55.245][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 23:36:55.246][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 23:36:55.247][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 23:36:55.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.252][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 23:36:55.253][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.256][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.DEBUG[2025-02-03 23:36:55.257][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 23:36:55.259][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 23:36:55.261][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 23:36:55.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.265][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:55.267][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 23:36:55.268][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 23:36:55.269][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 23:36:55.270][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 23:36:55.271][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 23:36:55.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.276][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 23:36:55.278][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 23:36:55.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.286][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 23:36:55.288][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 23:36:55.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.293][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 23:36:55.294][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 23:36:55.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.299][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 23:36:55.300][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 23:36:55.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.304][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 23:36:55.306][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 23:36:55.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.310][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:55.311][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 23:36:55.315][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 23:36:55.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.319][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 23:36:55.320][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 23:36:55.322][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 23:36:55.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.326][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 23:36:55.328][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.330][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 23:36:55.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.332][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:55.333][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.335][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.336][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.337][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.338][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:55.339][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:55.341][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.342][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 23:36:55.343][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:55.344][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.345][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.347][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:55.347][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:55.347][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:55.347][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:55.347][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:55.348][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:55.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.352][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:55.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.356][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.357][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:55.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:55.360][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.362][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.363][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 23:36:55.365][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.366][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:55.368][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:55.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.372][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.373][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.374][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.376][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:55.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:55.378][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.380][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 23:36:55.381][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:55.382][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.383][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.385][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:55.385][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:55.385][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:55.385][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:55.385][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:55.386][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:55.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.397][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:55.403][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.405][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.406][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.407][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:55.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:55.410][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.411][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.412][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 23:36:55.414][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.415][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 23:36:55.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.418][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:55.419][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.420][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.421][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.422][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.423][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:55.425][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:55.426][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.427][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 23:36:55.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:55.429][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.430][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.432][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.433][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:55.434][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.435][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.436][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:55.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.439][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.441][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:55.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:55.444][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.445][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.446][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 23:36:55.448][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.450][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:55.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:55.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.454][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.455][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.457][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.458][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:55.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:55.461][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.463][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 23:36:55.465][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:55.467][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.469][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.471][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.473][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:55.475][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.477][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.479][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:55.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.483][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.484][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:55.487][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:55.488][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.489][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:55.490][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:55.491][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.493][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[2025-02-03 23:36:55.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.498][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[2025-02-03 23:36:55.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.503][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[2025-02-03 23:36:55.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.508][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[2025-02-03 23:36:55.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.553][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[2025-02-03 23:36:55.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.577][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[2025-02-03 23:36:55.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.604][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 23:36:55.606][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 23:36:55.609][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 23:36:55.611][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 23:36:55.614][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:55.616][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 23:36:55.618][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:55.621][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:55.623][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 23:36:55.626][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 23:36:55.628][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:55.631][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 23:36:55.633][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:55.636][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:55.638][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 23:36:55.640][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 23:36:55.643][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 23:36:55.645][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 23:36:55.648][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:55.650][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 23:36:55.653][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 23:36:55.655][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 23:36:55.657][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 23:36:55.660][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 23:36:55.662][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 23:36:55.665][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 23:36:55.667][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 23:36:55.670][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 23:36:55.672][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 23:36:55.674][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 23:36:55.677][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 23:36:55.679][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 23:36:55.682][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 23:36:55.684][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 23:36:55.686][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 23:36:55.689][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 23:36:55.691][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 23:36:55.694][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 23:36:55.696][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 23:36:55.699][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 23:36:55.701][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 23:36:55.704][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 23:36:55.706][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 23:36:55.709][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 23:36:55.711][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 23:36:55.714][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 23:36:55.716][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 23:36:55.719][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 23:36:55.722][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 23:36:55.724][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 23:36:55.727][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 23:36:55.729][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 23:36:55.731][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 23:36:55.732][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 23:36:55.734][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 23:36:55.735][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 23:36:55.737][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 23:36:55.738][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 23:36:55.740][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 23:36:55.741][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 23:36:55.743][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 23:36:55.745][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 23:36:55.746][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 23:36:55.748][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 23:36:55.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 23:36:55.751][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 23:36:55.752][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:55.754][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:55.755][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 23:36:55.757][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 23:36:55.758][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 23:36:55.760][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 23:36:55.762][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 23:36:55.763][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 23:36:55.765][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 23:36:55.766][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 23:36:55.768][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 23:36:55.769][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 23:36:55.771][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 23:36:55.772][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 23:36:55.774][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 23:36:55.776][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 23:36:55.778][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 23:36:55.780][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 23:36:55.784][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:55.786][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:55.788][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.791][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.828][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[2025-02-03 23:36:55.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.836][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[2025-02-03 23:36:55.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.858][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[2025-02-03 23:36:55.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.879][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[2025-02-03 23:36:55.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.901][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[2025-02-03 23:36:55.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.916][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[2025-02-03 23:36:55.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:55.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:55.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:55.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:55.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:55.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:55.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:55.941][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:55.943][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 23:36:55.945][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.947][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.948][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:55.950][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.951][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.953][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.954][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 23:36:55.955][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 23:36:55.956][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:55.957][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.958][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 23:36:55.960][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 23:36:55.961][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 23:36:55.962][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:55.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:55.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:55.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:55.965][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 23:36:55.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:55.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:55.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:55.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:55.972][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:55.972][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 23:36:55.973][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:55.975][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:55.976][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:55.977][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 23:36:55.977][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 23:36:55.978][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:55.980][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:55.982][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 23:36:55.983][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:55.985][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:55.987][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:55.990][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 23:36:55.991][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 23:36:55.993][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 23:36:55.994][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 23:36:55.996][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:55.997][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:55.999][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 23:36:56.000][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 23:36:56.002][biodb::testThat]
biodb.INFO [2025-02-03 23:36:56.003][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-02-03 23:36:56.004][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:56.005][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:56.009][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 23:36:56.015][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:56.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 23:36:56.021][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:56.024][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 23:36:56.029][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[2025-02-03 23:36:56.033][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:56.034][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:56.036][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-03 23:36:56.350][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-03 23:36:56.654][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:36:56.657][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-02-03 23:36:56.662][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-02-03 23:36:56.681][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 23:36:56.682][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 23:36:56.684][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 23:36:56.685][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 23:36:56.686][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:56.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:56.688][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:56.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:56.691][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 23:36:56.697][biodb::testContext]
biodb.INFO [2025-02-03 23:36:56.699][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:56.700][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-02-03 23:36:56.701][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 23:36:56.702][biodb::testContext]
biodb.INFO [2025-02-03 23:36:56.705][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:56.708][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:56.713][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:56.714][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 23:36:56.716][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.722][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 23:36:56.723][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.727][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 23:36:56.729][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.733][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 23:36:56.734][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 23:36:56.736][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 23:36:56.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.740][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 23:36:56.742][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 23:36:56.743][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.748][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 23:36:56.749][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 23:36:56.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.754][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 23:36:56.755][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 23:36:56.756][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 23:36:56.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.759][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.DEBUG[2025-02-03 23:36:56.761][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 23:36:56.762][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.766][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 23:36:56.768][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 23:36:56.769][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 23:36:56.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.773][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:56.775][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 23:36:56.776][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 23:36:56.777][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 23:36:56.778][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 23:36:56.780][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 23:36:56.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.784][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 23:36:56.785][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 23:36:56.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.789][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[2025-02-03 23:36:56.791][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 23:36:56.792][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 23:36:56.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.797][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 23:36:56.798][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 23:36:56.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.803][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 23:36:56.804][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 23:36:56.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.809][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 23:36:56.810][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 23:36:56.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.813][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[2025-02-03 23:36:56.815][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 23:36:56.816][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 23:36:56.819][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 23:36:56.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:56.824][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 23:36:56.825][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 23:36:56.827][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 23:36:56.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:56.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:56.831][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[2025-02-03 23:36:56.832][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 23:36:56.834][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.835][self$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[2025-02-03 23:36:56.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.838][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:56.840][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.842][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.846][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.848][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:56.849][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:56.851][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.853][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 23:36:56.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:56.857][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.859][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.861][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:56.861][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:56.861][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:56.861][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:56.861][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:56.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:56.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.869][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:56.871][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.873][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.875][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:56.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:56.879][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.880][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.881][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 23:36:56.884][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.885][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:56.887][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.889][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:56.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.895][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.897][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.899][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:56.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:56.903][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.905][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 23:36:56.907][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:56.909][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.911][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.913][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:56.913][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:56.913][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:56.913][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 23:36:56.913][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 23:36:56.915][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:56.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:56.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.926][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.928][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.930][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:56.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:56.934][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.936][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.938][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 23:36:56.941][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.943][self$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[2025-02-03 23:36:56.945][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:56.961][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.962][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.964][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.965][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.966][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 23:36:56.967][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:56.969][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.970][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 23:36:56.971][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:56.972][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.973][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.975][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.976][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:56.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.980][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:56.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:56.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:56.984][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:56.986][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.987][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:56.988][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:56.989][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:56.990][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:56.992][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 23:36:56.994][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.995][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 23:36:56.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:56.997][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:56.999][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.000][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.001][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:57.002][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.003][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 23:36:57.005][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:57.006][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:57.007][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 23:36:57.008][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:57.009][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:57.010][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.012][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:57.014][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 23:36:57.016][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:57.018][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:57.019][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:57.021][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:57.023][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:57.025][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.027][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:57.028][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:57.030][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:57.032][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:57.034][self$setPropertyValue]
biodb.DEBUG[2025-02-03 23:36:57.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:57.038][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.080][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.DEBUG[2025-02-03 23:36:57.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.107][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[2025-02-03 23:36:57.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.141][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[2025-02-03 23:36:57.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.152][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 23:36:57.155][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 23:36:57.157][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 23:36:57.160][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 23:36:57.163][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:57.165][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 23:36:57.168][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:57.170][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:57.173][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 23:36:57.176][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 23:36:57.178][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:57.181][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 23:36:57.183][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 23:36:57.186][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 23:36:57.188][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 23:36:57.191][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 23:36:57.193][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 23:36:57.195][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 23:36:57.198][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:57.200][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 23:36:57.203][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 23:36:57.205][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 23:36:57.208][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 23:36:57.210][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 23:36:57.212][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 23:36:57.215][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 23:36:57.217][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 23:36:57.220][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 23:36:57.222][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 23:36:57.225][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 23:36:57.227][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 23:36:57.230][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 23:36:57.232][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 23:36:57.233][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 23:36:57.235][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 23:36:57.236][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 23:36:57.238][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 23:36:57.239][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 23:36:57.241][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 23:36:57.243][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 23:36:57.244][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 23:36:57.246][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 23:36:57.247][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 23:36:57.249][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 23:36:57.250][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 23:36:57.252][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 23:36:57.254][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 23:36:57.255][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 23:36:57.257][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 23:36:57.258][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 23:36:57.260][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 23:36:57.262][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 23:36:57.265][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 23:36:57.267][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 23:36:57.269][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 23:36:57.272][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 23:36:57.274][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 23:36:57.277][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 23:36:57.279][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 23:36:57.282][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 23:36:57.284][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 23:36:57.287][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 23:36:57.289][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 23:36:57.292][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 23:36:57.294][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 23:36:57.297][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 23:36:57.299][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:57.302][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:57.304][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 23:36:57.307][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 23:36:57.309][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 23:36:57.312][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 23:36:57.314][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 23:36:57.317][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 23:36:57.319][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 23:36:57.322][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 23:36:57.325][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 23:36:57.327][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 23:36:57.330][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 23:36:57.332][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 23:36:57.335][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 23:36:57.337][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 23:36:57.340][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 23:36:57.342][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 23:36:57.346][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 23:36:57.348][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 23:36:57.350][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.353][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.402][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.DEBUG[2025-02-03 23:36:57.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.438][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[2025-02-03 23:36:57.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.509][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[2025-02-03 23:36:57.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 23:36:57.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.539][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[2025-02-03 23:36:57.541][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 23:36:57.543][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 23:36:57.546][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:57.547][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.548][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.549][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 23:36:57.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.552][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.553][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.554][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 23:36:57.556][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 23:36:57.557][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 23:36:57.558][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.559][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 23:36:57.561][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 23:36:57.562][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 23:36:57.563][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 23:36:57.565][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 23:36:57.565][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 23:36:57.565][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 23:36:57.566][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 23:36:57.567][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:57.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:57.570][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 23:36:57.571][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 23:36:57.572][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 23:36:57.573][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 23:36:57.574][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:57.574][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 23:36:57.575][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 23:36:57.577][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 23:36:57.578][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 23:36:57.579][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 23:36:57.579][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 23:36:57.580][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 23:36:57.582][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 23:36:57.584][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 23:36:57.585][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 23:36:57.587][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 23:36:57.589][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 23:36:57.592][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 23:36:57.593][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 23:36:57.595][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 23:36:57.597][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 23:36:57.598][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:57.599][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 23:36:57.601][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 23:36:57.602][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 23:36:57.604][biodb::testThat]
biodb.INFO [2025-02-03 23:36:57.605][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-02-03 23:36:57.606][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 23:36:57.608][biodb::testThat]
biodb.DEBUG[2025-02-03 23:36:57.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 23:36:57.616][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:57.618][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 23:36:57.620][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:57.622][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 23:36:57.627][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 23:36:57.631][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 23:36:57.632][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-03 23:36:57.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 23:36:57.637][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-02-03 23:36:57.642][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-02-03 23:36:57.643][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 23:36:57.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-02-03 23:36:57.647][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 23:36:57.648][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 23:36:57.649][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 23:36:57.651][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 23:36:57.652][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 23:36:57.654][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 23:36:57.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:36:57.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:36:57.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:36:57.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:36:57.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:36:57.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:36:57.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 23:36:57.683][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-02-03 23:36:57.686][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 23:36:57.687][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 23:36:57.688][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-02-03 23:36:59.805][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-02-03 23:37:00.387][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 23:37:00.390][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-02-03 23:37:00.396][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-02-03 23:37:00.400][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-02-03 23:37:00.404][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 23:37:00.405][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 23:37:00.407][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 23:37:00.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 23:37:00.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:37:00.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:37:00.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:37:00.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:37:00.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:37:00.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 23:37:00.429][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.433][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.440][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:37:00.441][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:37:00.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.443][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.445][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 23:37:00.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 23:37:00.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.450][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:37:00.452][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:37:00.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.454][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 23:37:00.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 23:37:00.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.461][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 23:37:00.462][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 23:37:00.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.465][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.466][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 23:37:00.468][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 23:37:00.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.470][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.472][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:37:00.473][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:37:00.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.475][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.477][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:37:00.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 23:37:00.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.482][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:37:00.484][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:37:00.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.486][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.488][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 23:37:00.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 23:37:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.493][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:37:00.494][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:37:00.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.496][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:37:00.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 23:37:00.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.507][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:37:00.510][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:37:00.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.513][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 23:37:00.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 23:37:00.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.526][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:37:00.528][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:37:00.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.531][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.534][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 23:37:00.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 23:37:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:37:00.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:37:00.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.548][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 23:37:00.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 23:37:00.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 23:37:00.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 23:37:00.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 23:37:00.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 23:37:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 23:37:00.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 23:37:00.630][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-02-03 23:37:00.645][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 23:37:00.648][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 23:37:00.650][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 23:37:00.652][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 23:37:00.654][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 23:37:00.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 23:37:00.658][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 23:37:00.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 23:37:00.661][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 23:37:00.663][FUN] Functions in observer 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 
  24.51    2.09   62.00

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 3.44 2.47104.54
ChebiEntry0.500.000.51