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This page was generated on 2024-07-16 11:40 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4677
palomino6Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4416
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4444
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4393
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4373
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 197/2243HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.11.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-07-15 14:00 -0400 (Mon, 15 Jul 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: dfe3f6c
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino6Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  

CHECK results for biodbChebi on palomino6

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: 1.11.0
Command: C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=C:\Users\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
StartedAt: 2024-07-15 22:08:37 -0400 (Mon, 15 Jul 2024)
EndedAt: 2024-07-15 22:11:09 -0400 (Mon, 15 Jul 2024)
EllapsedTime: 152.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=C:\Users\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.11.0'
* 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 2.44   2.63    6.29
* 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:
###
###   C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library 'C:/Users/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'biodbChebi' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"
Copyright (C) 2024 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 [2024-07-15 22:09:46.154][biodb::testContext]
biodb.INFO [2024-07-15 22:09:46.158][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:09:46.159][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-15 22:09:46.161][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:09:46.162][biodb::testContext]
biodb.INFO [2024-07-15 22:09:46.169][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:09:46.171][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:09:46.179][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:09:46.181][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:09:46.183][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.189][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:09:46.224][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.228][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:09:46.229][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.233][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:09:46.239][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:09:46.241][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:09:46.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.245][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:09:46.246][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:09:46.247][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.251][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:09:46.252][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:09:46.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.256][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[2024-07-15 22:09:46.258][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:09:46.259][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:09:46.260][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:09:46.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.264][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:09:46.265][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.269][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:09:46.271][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:09:46.276][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:09:46.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.281][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:09:46.282][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:09:46.283][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:09:46.284][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:09:46.285][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:09:46.286][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:09:46.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.291][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:09:46.292][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:09:46.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.296][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:09:46.297][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:09:46.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.301][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:09:46.302][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:09:46.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.307][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:09:46.308][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:09:46.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.312][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:09:46.313][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:09:46.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.317][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:09:46.318][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:09:46.325][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:09:46.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.330][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:09:46.331][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:09:46.333][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:09:46.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.340][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:09:46.367][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.380][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:09:46.381][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.382][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:09:46.383][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.384][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.385][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.386][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.387][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:09:46.389][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:09:46.390][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.391][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:09:46.392][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:09:46.393][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.394][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.395][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:09:46.395][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:09:46.395][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:09:46.395][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:09:46.395][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:09:46.396][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:09:46.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.399][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:09:46.400][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.401][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.402][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.404][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.405][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:09:46.406][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:09:46.407][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.414][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.416][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:09:46.417][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.419][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:09:46.420][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.421][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:09:46.422][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.423][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.424][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.425][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.426][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:09:46.427][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:09:46.428][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.429][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:09:46.430][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:09:46.431][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.432][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.433][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:09:46.433][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:09:46.433][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:09:46.433][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:09:46.433][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:09:46.435][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:09:46.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.437][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.438][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:09:46.439][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.440][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.441][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.442][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.443][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:09:46.444][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:09:46.445][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.446][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.448][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:09:46.449][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.450][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:09:46.452][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.453][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:09:46.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.457][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.458][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:09:46.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:09:46.460][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.461][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:09:46.462][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:09:46.463][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.464][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.465][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.466][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:09:46.467][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.469][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:09:46.470][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.471][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.472][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.473][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.474][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:09:46.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:09:46.476][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.477][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.479][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:09:46.480][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.482][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:09:46.483][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.484][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:09:46.485][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.486][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.487][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.488][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.489][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:09:46.490][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:09:46.491][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.492][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:09:46.493][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:09:46.494][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.495][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.496][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.497][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:09:46.499][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.499][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.501][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:09:46.502][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.502][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.503][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.505][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.506][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:09:46.507][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:09:46.508][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.509][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:09:46.512][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:09:46.513][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.557][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.DEBUG[2024-07-15 22:09:46.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.598][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:09:46.602][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:09:46.604][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:09:46.610][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:09:46.612][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:09:46.613][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:09:46.615][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:09:46.616][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:09:46.617][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:09:46.619][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:09:46.620][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:09:46.621][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:09:46.623][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:09:46.624][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:09:46.626][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:09:46.627][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:09:46.629][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:09:46.633][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:09:46.635][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:09:46.636][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:09:46.638][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:09:46.639][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:09:46.641][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:09:46.642][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:09:46.643][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:09:46.645][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:09:46.646][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:09:46.648][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:09:46.649][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:09:46.651][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:09:46.652][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:09:46.654][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:09:46.655][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:09:46.656][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:09:46.658][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:09:46.659][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:09:46.660][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:09:46.662][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:09:46.663][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:09:46.665][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:09:46.666][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:09:46.668][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:09:46.669][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:09:46.670][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:09:46.672][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:09:46.673][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:09:46.675][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:09:46.676][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:09:46.677][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:09:46.679][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:09:46.680][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:09:46.682][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:09:46.683][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:09:46.684][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:09:46.686][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:09:46.687][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:09:46.689][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:09:46.690][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:09:46.691][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:09:46.693][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:09:46.694][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:09:46.696][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:09:46.697][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:09:46.698][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:09:46.700][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:09:46.701][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:09:46.703][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:09:46.704][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:09:46.705][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:09:46.707][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:09:46.708][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:09:46.710][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:09:46.711][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:09:46.712][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:09:46.714][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:09:46.715][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:09:46.716][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:09:46.718][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:09:46.719][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:09:46.721][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:09:46.722][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:09:46.724][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:09:46.725][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:09:46.743][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:09:46.745][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:09:46.748][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:09:46.749][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.751][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.768][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[2024-07-15 22:09:46.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:09:46.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:46.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:46.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:46.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:46.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:46.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:46.879][biodb$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:09:46.888][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:09:46.889][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.891][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.892][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.893][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:09:46.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.896][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.897][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:09:46.898][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:09:46.899][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:09:46.900][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.901][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:09:46.902][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:09:46.903][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:09:46.905][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:09:46.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:09:46.906][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:09:46.906][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:09:46.907][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:09:46.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.910][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:09:46.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:09:46.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:09:46.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:09:46.914][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:09:46.914][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:09:46.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:09:46.916][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:09:46.917][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:09:46.918][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:09:46.918][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:09:46.923][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:09:46.925][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:09:46.926][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:09:46.928][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:09:46.929][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:09:46.931][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:09:46.950][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:09:46.951][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:09:46.955][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:09:46.958][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:09:46.961][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:09:46.962][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:09:46.964][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:09:46.965][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:09:46.974][biodb::testThat]
biodb.INFO [2024-07-15 22:09:46.975][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-15 22:09:46.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:46.977][biodb::testThat]
biodb.TRACE[2024-07-15 22:09:46.981][loadFileContents] Loaded 1 files from cache: [1]: "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-07-15 22:09:46.983][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:09:46.986][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:09:47.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:47.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:47.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:47.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:47.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:47.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:47.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:47.031][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.032][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.051][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.052][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.055][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.085][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.087][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.095][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.096][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.103][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.106][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.112][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.113][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.115][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.117][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.121][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:47.122][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.126][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:47.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.130][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.131][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.139][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.140][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.142][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.148][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:47.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.153][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:47.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.202][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.205][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:47.282][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-07-15 22:09:47.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.339][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:47.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.353][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:47.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:47.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.474][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.514][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:47.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.545][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.549][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:47.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:47.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.582][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.583][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.619][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.651][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.653][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.688][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.693][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.702][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.731][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.741][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.745][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.747][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.764][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.769][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.778][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.779][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.800][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.808][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.812][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.851][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.852][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.854][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.884][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.885][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.909][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:47.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:47.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.922][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:47.923][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:47.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.934][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:47.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:47.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.944][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:47.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:47.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.953][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:47.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.963][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:47.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.966][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.973][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:47.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.987][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:47.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.989][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:47.995][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:47.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:47.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.005][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.015][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:48.016][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:48.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.018][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:09:48.030][biodb::testThat]
biodb.INFO [2024-07-15 22:09:48.031][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-15 22:09:48.032][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:48.033][biodb::testThat]
biodb.DEBUG[2024-07-15 22:09:48.045][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-07-15 22:09:48.050][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:09:48.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-07-15 22:09:48.057][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:48.059][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-07-15 22:09:48.061][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:09:48.086][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:09:48.087][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:09:48.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:48.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:48.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:48.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:48.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:48.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:48.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:48.104][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.126][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:48.127][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:48.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.129][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.135][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:48.136][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:48.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.139][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:48.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:48.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:48.145][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:48.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:48.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:48.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.152][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:48.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:48.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:48.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:48.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.161][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:48.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:48.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.166][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:48.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:48.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.170][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:48.171][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:48.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.174][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:48.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:48.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:48.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:48.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:48.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:48.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.188][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.197][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:48.198][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:48.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:48.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:48.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.206][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:48.207][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:48.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:48.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:48.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:48.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:48.263][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-07-15 22:09:48.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-15 22:09:48.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-15 22:09:48.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-15 22:09:48.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-15 22:09:48.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-15 22:09:48.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-15 22:09:48.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:09:48.290][biodb::testThat]
biodb.INFO [2024-07-15 22:09:48.291][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-15 22:09:48.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:48.293][biodb::testThat]
biodb.TRACE[2024-07-15 22:09:48.296][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.297][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.299][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:48.301][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-07-15 22:09:48.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:48.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:48.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:48.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:48.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:48.352][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-07-15 22:09:48.356][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:09:48.380][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:09:48.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:09:48.399][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:48.401][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:09:48.422][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:48.426][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:48.428][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:48.430][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:09:49.156][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:09:49.745][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:49.748][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-15 22:09:49.762][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-15 22:09:49.766][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-07-15 22:09:49.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:49.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:49.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:49.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:49.795][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:49.796][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:49.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:49.798][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:09:49.808][biodb::testThat]
biodb.INFO [2024-07-15 22:09:49.810][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-15 22:09:49.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:49.812][biodb::testThat]
biodb.TRACE[2024-07-15 22:09:49.907][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:49.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:49.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:49.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:49.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:49.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:49.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:49.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:49.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:49.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:49.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:49.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:49.985][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:49.990][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:09:49.993][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:09:49.995][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:49.998][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-07-15 22:09:50.043][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.045][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-15 22:09:50.046][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:50.047][biodb::testThat]
biodb.TRACE[2024-07-15 22:09:50.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:50.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:50.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:50.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:50.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.083][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:50.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:50.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.116][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:50.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:50.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:50.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:50.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:50.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:50.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:50.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:50.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.167][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.172][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-15 22:09:50.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.176][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:50.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-15 22:09:50.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:50.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:50.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-15 22:09:50.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:50.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:09:50.195][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.196][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-15 22:09:50.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:50.198][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.209][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.210][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-15 22:09:50.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:50.212][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.222][biodb::testThat]
biodb.INFO [2024-07-15 22:09:50.224][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-15 22:09:50.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:50.226][biodb::testThat]
biodb.DEBUG[2024-07-15 22:09:50.230][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-07-15 22:09:50.862][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-07-15 22:09:52.224][biodb::testThat]
biodb.INFO [2024-07-15 22:09:52.225][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-15 22:09:52.227][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:52.228][biodb::testThat]
biodb.DEBUG[2024-07-15 22:09:52.690][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-07-15 22:09:53.166][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:53.167][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:53.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.171][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:53.172][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:53.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.174][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:09:53.182][biodb::testThat]
biodb.INFO [2024-07-15 22:09:53.186][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-07-15 22:09:53.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:09:53.189][biodb::testThat]
biodb.TRACE[2024-07-15 22:09:53.209][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:53.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:53.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:53.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:53.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:53.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:53.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:53.297][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:53.309][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:09:53.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:09:53.313][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:53.315][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:09:53.370][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:53.373][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:09:53.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:09:53.378][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:53.380][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-07-15 22:09:53.414][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:09:53.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:09:53.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:53.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:53.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:53.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:53.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:53.476][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:53.477][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:53.491][private$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[2024-07-15 22:09:53.916][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[2024-07-15 22:09:54.383][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:54.386][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-15 22:09:54.391][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-15 22:09:54.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:54.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:54.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:54.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:54.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:54.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:54.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:54.415][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-07-15 22:09:54.453][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:09:54.455][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-07-15 22:09:54.457][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:09:54.458][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:09:54.459][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:09:54.460][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:09:54.461][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:09:54.462][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:09:54.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:54.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:54.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:54.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:54.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:54.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:54.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:54.479][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-07-15 22:09:54.482][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:54.483][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:54.490][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-07-15 22:09:54.930][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-07-15 22:09:55.370][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:55.373][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-07-15 22:09:55.385][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-07-15 22:09:55.391][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-07-15 22:09:55.398][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:09:55.400][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:09:55.401][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:09:55.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:55.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:55.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:55.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:55.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:55.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:55.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:55.429][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.439][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:55.440][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:55.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.444][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:55.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:55.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.449][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:55.450][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:55.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:55.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:55.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.459][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:55.460][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:55.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:55.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:55.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:55.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:55.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:55.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.477][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:55.478][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:55.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.481][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:55.482][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.486][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:55.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.490][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:55.492][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:55.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:55.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:55.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.500][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:55.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:55.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:55.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:55.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.517][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:55.518][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:55.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.520][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:55.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.526][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:55.527][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:55.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.529][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:55.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:55.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:55.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:55.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:55.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:55.579][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-07-15 22:09:55.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:55.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:55.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:55.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:55.601][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:55.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:55.613][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:55.615][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:09:56.041][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:09:56.465][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:56.468][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-15 22:09:56.475][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-15 22:09:56.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:56.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:56.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:56.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:56.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:56.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:56.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:56.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:56.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:56.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:56.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:56.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:56.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:56.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:56.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:56.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:56.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:56.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:56.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:56.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:56.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:56.534][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-07-15 22:09:56.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:09:56.537][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-07-15 22:09:56.539][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:09:56.541][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:09:56.542][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:09:56.543][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:09:56.544][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:09:56.545][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:09:56.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:56.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:56.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:56.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:56.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:56.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:56.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:56.601][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-07-15 22:09:56.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:56.607][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:56.609][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-07-15 22:09:57.068][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-07-15 22:09:58.134][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:58.137][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-07-15 22:09:58.142][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-07-15 22:09:58.146][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-07-15 22:09:58.149][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:09:58.150][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:09:58.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:09:58.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:58.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:58.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:58.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:58.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:58.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:58.169][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.TRACE[2024-07-15 22:09:58.171][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.175][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.181][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:58.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:58.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.186][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:58.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:58.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.191][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:58.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:58.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:58.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:58.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:58.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:58.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:58.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:58.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.210][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:58.211][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:58.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:58.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:58.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:58.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:58.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.223][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:58.225][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.228][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:58.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:58.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:58.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.244][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:58.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:58.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:58.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:58.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:58.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:58.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.260][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:58.261][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:58.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.263][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:58.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:58.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:58.270][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:58.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:58.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:58.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:58.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:58.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:58.324][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-07-15 22:09:58.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:58.395][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:09:58.399][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:09:58.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:09:58.402][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:09:58.404][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:09:58.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:58.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:58.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:58.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:58.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:58.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:58.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:58.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:58.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:58.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:58.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:58.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:58.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:58.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:58.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:58.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:58.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:58.498][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-07-15 22:09:58.499][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:09:58.501][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-07-15 22:09:58.502][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:09:58.504][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:09:58.505][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:09:58.506][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:09:58.509][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:09:58.511][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:09:58.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:58.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:58.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:58.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:58.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:58.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:58.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:58.550][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-07-15 22:09:58.553][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:58.554][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:58.556][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-07-15 22:09:58.985][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-07-15 22:09:59.410][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:09:59.414][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-07-15 22:09:59.420][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-07-15 22:09:59.433][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-07-15 22:09:59.440][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:09:59.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:09:59.445][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:09:59.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:59.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:59.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:59.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:59.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:59.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:59.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:09:59.462][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.463][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.465][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.471][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:09:59.472][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:09:59.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.476][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:09:59.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:09:59.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.480][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:09:59.481][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:09:59.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.485][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:09:59.486][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:09:59.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.488][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.489][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:59.490][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:09:59.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.494][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:09:59.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.498][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:59.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:09:59.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.502][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:59.504][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:59.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:09:59.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:09:59.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.512][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:59.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:59.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:09:59.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:09:59.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.520][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:09:59.522][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:09:59.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:09:59.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:09:59.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:09:59.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:59.578][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-07-15 22:09:59.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:09:59.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:09:59.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:09:59.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:09:59.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:59.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:59.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:59.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:59.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:59.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:59.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:59.615][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-07-15 22:09:59.616][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:09:59.618][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-07-15 22:09:59.620][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:09:59.621][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:09:59.622][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:09:59.623][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:09:59.624][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:09:59.625][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:09:59.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:09:59.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:09:59.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:09:59.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:09:59.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:09:59.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:09:59.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:09:59.641][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-07-15 22:09:59.644][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:09:59.646][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:09:59.647][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-07-15 22:10:00.068][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-07-15 22:10:00.493][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:00.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-07-15 22:10:00.503][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-07-15 22:10:00.508][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-07-15 22:10:00.510][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:00.518][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:00.521][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:00.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:00.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:00.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:00.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:00.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:00.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:00.537][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.TRACE[2024-07-15 22:10:00.540][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.543][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.549][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:00.550][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:00.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.552][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.556][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:00.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:00.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.561][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:00.562][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:00.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.565][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:00.567][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:00.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.570][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:00.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:00.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.575][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:00.576][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:00.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:00.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.583][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:00.585][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:00.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.587][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:00.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:00.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.593][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:00.594][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:00.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.597][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:00.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:00.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.602][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:00.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:00.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:00.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:00.656][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-07-15 22:10:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:00.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:00.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:00.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:00.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:00.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:00.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:00.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:00.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:00.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:00.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:00.696][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-07-15 22:10:00.697][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:00.699][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-07-15 22:10:00.701][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:00.702][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:00.703][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:00.704][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:00.705][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:00.706][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:00.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:00.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:00.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:00.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:00.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:00.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:00.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:00.724][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-07-15 22:10:00.727][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:00.728][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:00.730][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-07-15 22:10:01.147][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-07-15 22:10:01.588][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:01.591][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-07-15 22:10:01.597][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-07-15 22:10:01.600][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-07-15 22:10:01.604][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:01.607][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:01.608][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:01.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:01.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:01.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:01.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:01.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:01.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:01.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:01.639][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.640][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.649][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:01.650][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:01.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.654][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:01.655][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:01.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.659][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:01.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:01.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.664][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:01.665][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:01.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.668][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:01.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:01.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.673][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:01.674][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.676][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.677][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:01.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:01.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.682][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:01.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:01.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:01.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:01.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.691][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:01.693][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:01.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.696][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:01.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:01.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.701][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:01.702][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:01.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:01.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:01.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:01.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:01.759][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-07-15 22:10:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:01.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:01.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:01.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:01.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:01.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:01.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:01.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:01.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:01.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:01.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:01.800][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-07-15 22:10:01.801][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:01.803][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-07-15 22:10:01.805][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:01.806][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:01.807][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:01.808][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:01.809][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:01.810][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:01.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:01.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:01.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:01.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:01.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:01.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:01.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:01.830][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-07-15 22:10:01.834][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:01.835][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:01.837][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-07-15 22:10:02.256][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-07-15 22:10:02.692][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:02.695][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-07-15 22:10:02.708][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-07-15 22:10:02.728][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-07-15 22:10:02.737][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:02.740][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:02.742][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:02.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:02.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:02.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:02.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:02.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:02.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:02.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:02.780][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.789][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:02.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:02.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:02.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:02.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.799][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:02.800][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:02.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.802][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.805][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:02.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:02.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:02.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:02.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:02.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:02.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.822][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:02.823][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:02.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:02.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:02.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.831][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:02.832][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:02.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.835][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:02.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:02.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.840][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:02.841][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.843][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:02.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.849][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:02.850][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:02.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:02.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:02.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.858][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:02.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:02.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:02.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:02.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.867][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:02.868][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:02.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:02.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:02.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.884][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:02.886][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:02.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:02.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:02.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:02.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:02.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:02.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:02.945][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-07-15 22:10:02.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:02.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:02.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:02.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:02.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:02.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:02.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:02.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:02.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:02.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:02.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:02.975][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-07-15 22:10:02.977][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:02.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-07-15 22:10:02.981][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:02.983][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:02.985][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:02.987][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:02.988][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:02.990][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:02.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:02.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:02.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:03.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:03.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:03.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:03.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:03.018][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-07-15 22:10:03.021][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:03.022][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:03.024][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-07-15 22:10:03.444][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-07-15 22:10:03.865][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:03.868][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-07-15 22:10:03.873][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-07-15 22:10:03.877][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-07-15 22:10:03.879][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:03.881][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:03.882][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:03.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:03.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:03.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:03.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:03.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:03.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:03.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:03.901][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:03.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:03.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.905][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:03.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:03.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.911][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:03.912][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:03.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.914][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.915][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:03.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:03.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.920][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:03.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:03.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:03.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:03.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.928][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:03.930][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:03.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:03.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:03.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.937][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:03.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:03.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.940][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:03.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:03.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.946][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:03.947][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:03.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.952][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:03.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:03.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.957][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:03.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:03.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.962][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:03.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:03.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:03.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:03.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:03.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.985][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:03.986][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:03.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.989][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:03.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:03.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:03.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:03.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:03.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:03.998][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:04.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:04.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:04.006][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:04.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.009][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:04.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:04.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:04.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:04.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:04.897][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-07-15 22:10:04.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:04.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:04.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:04.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:04.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:04.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:04.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:04.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:04.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:04.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:04.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:04.952][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-07-15 22:10:04.953][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:04.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-07-15 22:10:04.958][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:04.959][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:04.961][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:04.962][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:04.963][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:04.964][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:04.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:04.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:04.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:04.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:04.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:04.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:04.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:04.991][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-07-15 22:10:04.994][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:04.995][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:04.997][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-07-15 22:10:05.425][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-07-15 22:10:05.850][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:05.854][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-07-15 22:10:05.858][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-07-15 22:10:05.863][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-07-15 22:10:05.867][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:05.868][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:05.870][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:05.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:05.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:05.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:05.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:05.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:05.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:05.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:05.924][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:05.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:05.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:05.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:05.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.934][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:05.935][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:05.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.938][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.939][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:05.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:05.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.944][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:05.945][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:05.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:05.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:05.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:05.955][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:05.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:05.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:05.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.970][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:05.972][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:05.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:05.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:05.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:05.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:05.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.986][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:05.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:05.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.989][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.991][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:05.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:05.995][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:05.996][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:05.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:05.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:06.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:06.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.005][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:06.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:06.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:06.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:06.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.014][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:06.015][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:06.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.018][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:06.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:06.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:06.024][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:06.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.026][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:06.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:06.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:06.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:06.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:06.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:06.082][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-07-15 22:10:06.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:06.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:06.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:06.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:06.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:06.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:06.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:06.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:06.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:06.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:06.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:06.110][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-07-15 22:10:06.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:06.113][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-07-15 22:10:06.114][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:06.116][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:06.117][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:06.118][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:06.119][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:06.120][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:06.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:06.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:06.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:06.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:06.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:06.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:06.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:06.137][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-07-15 22:10:06.140][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:06.141][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:06.143][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-07-15 22:10:06.562][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-07-15 22:10:06.984][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:06.987][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-07-15 22:10:06.993][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-07-15 22:10:06.997][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-07-15 22:10:07.000][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:07.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:07.003][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:07.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:07.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:07.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:07.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:07.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:07.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:07.017][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[2024-07-15 22:10:07.020][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.029][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:07.030][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:07.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:07.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:07.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.046][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:07.047][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:07.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.049][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:07.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:07.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.055][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:07.056][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:07.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:07.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:07.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.063][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:07.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:07.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:07.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.072][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:07.073][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:07.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.076][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.077][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:07.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.080][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.082][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:07.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:07.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:07.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:07.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:07.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.095][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:07.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:07.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:07.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:07.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.104][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:07.105][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:07.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.109][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:07.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:07.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:07.114][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:07.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.116][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.117][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:07.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:07.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:07.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:07.171][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-07-15 22:10:07.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:07.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:07.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:07.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:07.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:07.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:07.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:07.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:07.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:07.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:07.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:07.202][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-07-15 22:10:07.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:07.204][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-07-15 22:10:07.206][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:07.207][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:07.208][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:07.209][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:07.211][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:07.212][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:07.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:07.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:07.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:07.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:07.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:07.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:07.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:07.230][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-07-15 22:10:07.234][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:07.235][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:07.237][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-07-15 22:10:07.657][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-07-15 22:10:08.076][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:08.079][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-07-15 22:10:08.083][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-07-15 22:10:08.086][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-07-15 22:10:08.088][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:08.089][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:08.091][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:08.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:08.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:08.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:08.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:08.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:08.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:08.113][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.TRACE[2024-07-15 22:10:08.116][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.117][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.119][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.125][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:08.126][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:08.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.128][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:08.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:08.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:08.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:08.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:08.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:08.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:08.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:08.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:08.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:08.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.151][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:08.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:08.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:08.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:08.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.161][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:08.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:08.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.165][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:08.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:08.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.174][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:08.175][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:08.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:08.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:08.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.183][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:08.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:08.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.187][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.188][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:08.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:08.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.193][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:08.194][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:08.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:08.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:08.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:08.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:08.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:08.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:08.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:08.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:08.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:08.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:08.271][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-07-15 22:10:08.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:08.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:08.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:08.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:08.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:08.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:08.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:08.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:08.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:08.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:08.302][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-07-15 22:10:08.303][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:08.305][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-07-15 22:10:08.307][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:08.308][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:08.309][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:08.310][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:08.311][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:08.312][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:08.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:08.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:08.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:08.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:08.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:08.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:08.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:08.335][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-07-15 22:10:08.338][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:08.340][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:08.341][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-07-15 22:10:08.779][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-07-15 22:10:09.246][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:09.249][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-07-15 22:10:09.254][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-07-15 22:10:09.258][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-07-15 22:10:09.260][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:09.261][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:09.263][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:09.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:09.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:09.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:09.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:09.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:09.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:09.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:09.285][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.288][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.294][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:09.295][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:09.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.298][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:09.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.303][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:09.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:09.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.306][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:09.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.312][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:09.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:09.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:09.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:09.322][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:09.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:09.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.329][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:09.331][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:09.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.333][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.334][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:09.335][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.337][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:09.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:09.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.361][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:09.362][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:09.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.364][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:09.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.370][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:09.371][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:09.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.373][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:09.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:09.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:09.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.384][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:09.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:09.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:09.433][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-07-15 22:10:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:09.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:09.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:09.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:09.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:09.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:09.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:09.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:09.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:09.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:09.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:09.953][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-07-15 22:10:09.954][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:09.957][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-07-15 22:10:09.960][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:09.962][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:09.964][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:09.965][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:09.966][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:09.967][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:09.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:09.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:09.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:09.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:09.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:09.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:09.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:09.995][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-07-15 22:10:09.999][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:10.000][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:10.001][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-07-15 22:10:10.423][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-07-15 22:10:11.190][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:11.193][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-07-15 22:10:11.206][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-07-15 22:10:11.211][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-07-15 22:10:11.224][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:11.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:11.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:11.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:11.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:11.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:11.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:11.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:11.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:11.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:11.248][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.257][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:11.258][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:11.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:11.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:11.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.266][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:11.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:11.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:11.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:11.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:11.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:11.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.278][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:11.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:11.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:11.285][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:11.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:11.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:11.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.305][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:11.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:11.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.310][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:11.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.313][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.315][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:11.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:11.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:11.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:11.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:11.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.329][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:11.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:11.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:11.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:11.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:11.340][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:11.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.342][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:11.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:11.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.348][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:11.349][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:11.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.351][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:11.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:11.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:11.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:11.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:11.409][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-07-15 22:10:11.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:11.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:11.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:11.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:11.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:11.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:11.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:11.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:11.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:11.442][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-07-15 22:10:11.443][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:11.445][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-07-15 22:10:11.447][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:11.448][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:11.450][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:11.451][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:11.453][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:11.455][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:11.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:11.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:11.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:11.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:11.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:11.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:11.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:11.475][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-07-15 22:10:11.479][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:11.480][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:11.482][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-07-15 22:10:11.907][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-07-15 22:10:12.328][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:12.332][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-07-15 22:10:12.338][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-07-15 22:10:12.342][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-07-15 22:10:12.344][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:12.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:12.347][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:12.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:12.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:12.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:12.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:12.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:12.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:12.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:12.364][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.367][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.373][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:12.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:12.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.377][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:12.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:12.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.390][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:12.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:12.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.394][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:12.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:12.401][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:12.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.404][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:12.406][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:12.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.409][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:12.410][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:12.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.413][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:12.415][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:12.424][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:12.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.426][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.432][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:12.433][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:12.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:12.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:12.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.441][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:12.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:12.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.444][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.446][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.450][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:12.451][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:12.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:12.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:12.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:12.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:12.507][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-07-15 22:10:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:12.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:12.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:12.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:12.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:12.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:12.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:12.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:12.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:12.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:12.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:12.536][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-07-15 22:10:12.537][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:12.539][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-07-15 22:10:12.541][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:12.542][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:12.543][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:12.544][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:12.546][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:12.547][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:12.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:12.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:12.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:12.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:12.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:12.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:12.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:12.576][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-07-15 22:10:12.580][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:12.581][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:12.583][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-07-15 22:10:13.037][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-07-15 22:10:13.460][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:13.463][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-07-15 22:10:13.467][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-07-15 22:10:13.471][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-07-15 22:10:13.473][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:13.474][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:13.476][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:13.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:13.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:13.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:13.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:13.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:13.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:13.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:13.495][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.498][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.512][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:13.514][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:13.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.518][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:13.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:13.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.522][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:13.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:13.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:13.532][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:13.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.536][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:13.537][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:13.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.540][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:13.541][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:13.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.545][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:13.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:13.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.554][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:13.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:13.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:13.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:13.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.563][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:13.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:13.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.566][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:13.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:13.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:13.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:13.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:13.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.581][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:13.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:13.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.584][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:13.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:13.639][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-07-15 22:10:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:13.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:13.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:13.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:13.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:13.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:13.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:13.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:13.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:13.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:13.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:13.667][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-07-15 22:10:13.669][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:13.670][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-07-15 22:10:13.672][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:13.673][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:13.675][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:13.676][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:13.677][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:13.678][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:13.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:13.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:13.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:13.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:13.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:13.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:13.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:13.696][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-07-15 22:10:13.699][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:13.700][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:13.702][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-07-15 22:10:14.136][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-07-15 22:10:14.584][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:14.587][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-07-15 22:10:14.591][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-07-15 22:10:14.596][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-07-15 22:10:14.598][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:14.599][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:14.601][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:14.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:14.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:14.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:14.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:14.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:14.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:14.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:14.626][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.627][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.635][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:14.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:14.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.638][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:14.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:14.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.644][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:14.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:14.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:14.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:14.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.653][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:14.654][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:14.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:14.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:14.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.664][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:14.665][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:14.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:14.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:14.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:14.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:14.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.678][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:14.680][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.683][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:14.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:14.690][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:14.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:14.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:14.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.698][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:14.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:14.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:14.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:14.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.707][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:14.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:14.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.712][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:14.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:14.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.716][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:14.717][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:14.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:14.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:14.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:14.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:14.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:14.778][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-07-15 22:10:14.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:14.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:14.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:14.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:14.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:14.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:14.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:14.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:14.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:14.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:14.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:14.807][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-07-15 22:10:14.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:14.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-07-15 22:10:14.812][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:14.813][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:14.814][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:14.816][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:14.817][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:14.818][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:14.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:14.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:14.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:14.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:14.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:14.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:14.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:14.835][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-07-15 22:10:14.838][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:14.839][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:14.841][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-07-15 22:10:15.266][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-07-15 22:10:15.698][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2024-07-15 22:10:15.703][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-07-15 22:10:16.223][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-07-15 22:10:16.229][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-07-15 22:10:16.236][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-07-15 22:10:16.241][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:16.244][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:16.246][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:16.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:16.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:16.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:16.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:16.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:16.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:16.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:16.269][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.278][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:16.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:16.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:16.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:16.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.287][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:16.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:16.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:16.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:16.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:16.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:16.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:16.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.306][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:16.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:16.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:16.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:16.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:16.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:16.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.318][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.320][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:16.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.323][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.324][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:16.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.329][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:16.330][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:16.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:16.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:16.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.338][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:16.339][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:16.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.349][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:16.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:16.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.358][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:16.359][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:16.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.361][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.363][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:16.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:16.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.367][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:16.368][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:16.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.371][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.372][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:16.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:16.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:16.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:16.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:16.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:16.423][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-07-15 22:10:16.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:16.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:16.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:16.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:16.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:16.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:16.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:16.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:16.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:16.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:16.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:16.454][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-07-15 22:10:16.455][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:16.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-07-15 22:10:16.464][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:16.466][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:16.468][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:16.469][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:16.471][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:16.472][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:16.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:16.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:16.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:16.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:16.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:16.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:16.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:16.491][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-07-15 22:10:16.495][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:16.496][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:16.497][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-07-15 22:10:16.922][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-07-15 22:10:17.349][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:18.280][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-07-15 22:10:18.289][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-07-15 22:10:18.300][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-07-15 22:10:18.308][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:18.310][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:18.312][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:18.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:18.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:18.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:18.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:18.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:18.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:18.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:18.333][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.342][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:18.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:18.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.346][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:18.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:18.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.351][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:18.352][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:18.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.354][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.355][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:18.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:18.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.360][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:18.361][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:18.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:18.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:18.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.371][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:18.372][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:18.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.374][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:18.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:18.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.390][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:18.392][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:18.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.397][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:18.398][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.406][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:18.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:18.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:18.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:18.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:18.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.424][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:18.426][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:18.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:18.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:18.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.434][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:18.435][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:18.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.439][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:18.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:18.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.444][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:18.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:18.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:18.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:18.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:18.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:18.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:18.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:18.497][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-07-15 22:10:18.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:18.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:18.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:18.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:18.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:18.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:18.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:18.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:18.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:18.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:18.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:18.535][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-07-15 22:10:18.536][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:18.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-07-15 22:10:18.539][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:18.540][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:18.542][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:18.543][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:18.544][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:18.545][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:18.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:18.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:18.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:18.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:18.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:18.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:18.561][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.DEBUG[2024-07-15 22:10:18.563][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-07-15 22:10:18.566][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:18.567][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:18.568][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-07-15 22:10:18.988][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-07-15 22:10:19.409][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:19.412][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-07-15 22:10:19.418][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-07-15 22:10:19.422][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-07-15 22:10:19.424][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:19.426][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:19.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:19.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:19.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:19.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:19.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:19.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:19.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:19.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:19.449][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.461][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:19.462][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:19.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:19.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:19.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.470][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:19.480][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:19.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.483][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:19.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:19.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.493][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:19.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:19.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:19.500][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:19.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:19.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:19.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.508][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:19.509][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:19.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.513][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:19.515][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.518][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:19.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:19.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:19.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:19.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.532][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:19.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:19.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:19.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:19.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.541][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:19.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:19.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:19.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:19.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.550][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:19.551][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:19.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:19.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:19.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:19.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:19.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:19.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:19.624][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-07-15 22:10:19.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:19.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:19.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:19.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:19.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:19.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:19.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:19.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:19.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:19.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:19.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:19.656][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-07-15 22:10:19.657][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:19.659][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-07-15 22:10:19.660][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:19.661][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:19.663][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:19.664][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:19.665][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:19.666][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:19.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:19.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:19.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:19.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:19.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:19.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:19.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:19.685][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-07-15 22:10:19.688][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:19.689][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:19.691][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-07-15 22:10:20.115][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-07-15 22:10:20.570][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2024-07-15 22:10:20.572][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-07-15 22:10:20.575][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-07-15 22:10:20.580][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-07-15 22:10:20.584][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-07-15 22:10:20.586][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:20.588][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:20.589][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:20.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:20.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:20.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:20.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:20.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:20.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:20.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:20.625][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.626][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.634][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:20.635][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:20.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:20.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:20.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.644][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:20.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:20.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:20.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.653][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:20.654][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:20.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:20.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:20.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:20.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:20.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:20.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:20.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:20.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:20.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.676][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:20.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.679][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.680][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:20.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:20.686][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:20.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:20.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:20.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.694][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:20.695][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:20.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:20.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:20.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.704][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:20.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:20.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.707][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.708][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:20.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:20.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.713][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:20.714][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:20.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:20.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:20.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:20.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:20.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:20.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:20.779][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-07-15 22:10:20.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:20.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:20.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:20.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:20.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:20.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:20.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:20.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:20.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:20.807][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-07-15 22:10:20.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:20.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-07-15 22:10:20.811][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:20.813][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:20.814][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:20.815][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:20.817][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:20.818][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:20.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:20.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:20.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:20.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:20.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:20.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:21.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:21.053][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-07-15 22:10:21.057][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:21.058][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:21.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-07-15 22:10:21.513][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-07-15 22:10:22.014][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:22.017][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-07-15 22:10:22.023][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-07-15 22:10:22.026][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-07-15 22:10:22.028][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:22.030][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:22.031][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:22.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:22.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:22.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:22.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:22.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:22.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:22.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:22.047][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.048][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.056][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:22.057][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:22.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.059][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:22.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:22.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.065][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:22.066][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:22.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:22.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:22.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.074][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:22.075][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:22.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.082][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:22.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:22.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.085][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:22.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:22.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.091][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:22.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:22.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.094][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.095][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:22.096][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.099][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:22.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.104][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:22.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:22.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:22.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.113][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:22.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:22.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.116][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.122][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:22.123][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:22.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.126][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:22.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:22.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.131][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:22.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:22.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:22.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:22.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:22.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:22.191][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-07-15 22:10:22.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:22.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:22.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:22.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:22.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:22.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:22.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:22.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:22.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:22.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:22.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:22.231][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-07-15 22:10:22.232][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:22.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-07-15 22:10:22.238][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:22.240][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:22.241][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:22.243][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:22.244][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:22.245][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:22.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:22.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:22.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:22.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:22.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:22.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:22.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:22.267][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-07-15 22:10:22.270][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:22.271][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:22.273][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-07-15 22:10:22.705][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-07-15 22:10:23.150][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:23.154][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-07-15 22:10:23.343][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-07-15 22:10:23.347][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-07-15 22:10:23.351][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:23.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:23.355][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:23.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:23.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:23.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:23.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:23.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:23.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:23.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:23.377][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.378][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.387][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:23.389][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:23.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.391][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:23.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:23.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.398][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:23.399][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:23.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.401][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.403][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:23.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.408][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:23.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:23.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:23.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:23.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.419][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:23.420][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:23.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:23.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:23.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.429][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:23.431][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:23.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.435][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:23.436][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.440][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:23.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:23.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:23.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:23.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.455][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:23.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:23.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:23.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:23.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:23.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:23.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.470][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:23.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:23.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.476][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:23.478][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:23.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:23.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:23.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:23.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:23.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:23.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:23.543][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-07-15 22:10:23.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:23.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:23.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:23.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:23.591][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:23.595][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:23.596][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:23.598][private$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[2024-07-15 22:10:24.153][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[2024-07-15 22:10:25.518][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:25.521][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-15 22:10:25.525][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-15 22:10:25.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.651][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[2024-07-15 22:10:25.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.721][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.TRACE[2024-07-15 22:10:25.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.801][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.TRACE[2024-07-15 22:10:25.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.831][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.TRACE[2024-07-15 22:10:25.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.891][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[2024-07-15 22:10:25.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.928][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[2024-07-15 22:10:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:25.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:25.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:25.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:25.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:25.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:25.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:25.985][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.TRACE[2024-07-15 22:10:25.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:25.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:25.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:26.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:26.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:26.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:26.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:26.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:26.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:26.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:26.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:26.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:26.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:26.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:26.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:26.043][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.TRACE[2024-07-15 22:10:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:26.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:26.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:26.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:26.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:26.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:26.071][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.TRACE[2024-07-15 22:10:26.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:26.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:26.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:26.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:26.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:26.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:26.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:26.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:26.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:26.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:26.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:26.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:26.131][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.TRACE[2024-07-15 22:10:26.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:26.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:26.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:26.215][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:26.219][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:26.220][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:26.222][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:26.656][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:27.074][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:27.077][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-07-15 22:10:27.081][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-07-15 22:10:27.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:27.088][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:27.090][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:27.092][private$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[2024-07-15 22:10:27.511][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[2024-07-15 22:10:27.933][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:27.936][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-07-15 22:10:27.942][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-07-15 22:10:27.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:27.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:27.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:27.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:27.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:27.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:27.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:27.961][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-07-15 22:10:27.962][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:27.964][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-07-15 22:10:27.966][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:27.967][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:27.968][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:27.969][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:27.971][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:27.972][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:27.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:27.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:27.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:27.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:27.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:27.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:27.990][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[2024-07-15 22:10:27.991][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-07-15 22:10:27.994][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:27.995][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:27.997][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-07-15 22:10:28.432][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-07-15 22:10:28.869][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:28.872][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-07-15 22:10:28.877][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-07-15 22:10:28.881][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-07-15 22:10:28.884][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:28.885][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:28.887][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:28.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:28.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:28.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:28.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:28.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:28.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:28.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:28.910][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:28.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:28.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.913][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:28.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:28.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.920][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:28.921][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:28.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:28.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:28.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.938][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:28.939][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:28.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.941][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:28.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:28.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.947][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:28.948][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:28.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:28.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:28.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.956][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:28.957][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:28.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:28.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:28.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:28.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:28.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.967][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.969][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.974][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:28.976][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:28.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:28.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:28.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:28.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:28.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:28.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:28.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.992][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:28.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:28.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:28.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:28.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:28.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:28.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.001][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:29.003][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:29.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:29.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:29.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.013][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:29.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:29.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:29.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:29.068][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-07-15 22:10:29.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:29.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:29.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:29.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:29.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:29.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:29.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:29.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:29.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:29.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:29.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:29.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:29.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:29.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:29.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:29.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:29.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:29.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:29.147][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-07-15 22:10:29.148][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:29.150][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-07-15 22:10:29.153][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:29.154][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:29.155][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:29.156][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:29.158][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:29.159][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:29.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:29.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:29.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:29.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:29.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:29.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:29.184][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[2024-07-15 22:10:29.186][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-07-15 22:10:29.190][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:29.191][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:29.193][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-07-15 22:10:29.627][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-07-15 22:10:30.055][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:30.059][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-07-15 22:10:30.434][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-07-15 22:10:30.439][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-07-15 22:10:30.442][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:30.450][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:30.452][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:30.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:30.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:30.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:30.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:30.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:30.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:30.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:30.476][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.488][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:30.489][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:30.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.493][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:30.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.499][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:30.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:30.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.504][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:30.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:30.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.510][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:30.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:30.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:30.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:30.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.520][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:30.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:30.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:30.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:30.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.533][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:30.534][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:30.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.541][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:30.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:30.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:30.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:30.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.554][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.567][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:30.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:30.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.571][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:30.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:30.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.577][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:30.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:30.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.581][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.583][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:30.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.587][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:30.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:30.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:30.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:30.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:30.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:30.651][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-07-15 22:10:30.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:30.736][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:30.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:30.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:10:30.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:30.750][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:10:30.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:30.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:30.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:30.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:30.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:30.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:30.775][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.TRACE[2024-07-15 22:10:30.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:30.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:30.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:30.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:30.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:30.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:30.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:30.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:30.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:30.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:30.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:30.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:30.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.884][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[2024-07-15 22:10:31.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.911][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.TRACE[2024-07-15 22:10:31.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:31.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:31.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:31.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:31.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:31.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:31.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:31.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:31.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:31.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:31.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:31.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.113][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.TRACE[2024-07-15 22:10:32.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.169][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.TRACE[2024-07-15 22:10:32.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.280][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[2024-07-15 22:10:32.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.325][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:32.328][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:32.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-15 22:10:32.331][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:32.333][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-15 22:10:32.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.382][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.TRACE[2024-07-15 22:10:32.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.746][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.TRACE[2024-07-15 22:10:32.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:32.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:32.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:32.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:32.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:32.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:32.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:32.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:32.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:32.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:32.979][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:32.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:32.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:32.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:10:33.002][biodb::testThat]
biodb.INFO [2024-07-15 22:10:33.004][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-07-15 22:10:33.005][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:33.006][biodb::testThat]
biodb.TRACE[2024-07-15 22:10:33.010][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:10:33.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:10:33.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:33.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:33.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:33.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:33.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:33.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:33.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:33.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:33.053][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:33.063][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:33.064][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:33.066][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:33.490][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:33.920][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:33.923][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-15 22:10:33.928][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-15 22:10:33.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:33.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:33.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:33.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:33.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:33.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:33.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:33.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:33.962][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:33.965][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:33.966][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:33.968][private$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[2024-07-15 22:10:34.421][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[2024-07-15 22:10:34.851][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:34.855][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-15 22:10:34.860][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-15 22:10:34.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:34.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:34.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:34.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:34.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:34.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:34.877][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.TRACE[2024-07-15 22:10:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:34.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:34.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:34.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:34.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:34.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:34.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:34.905][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.TRACE[2024-07-15 22:10:34.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:34.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:34.920][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:34.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:34.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:34.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:34.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:34.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:34.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:34.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:34.948][private$selectFields]
biodb.TRACE[2024-07-15 22:10:34.949][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:34.950][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:34.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:34.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.956][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:34.962][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:34.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.966][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.967][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:34.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:34.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:34.989][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:10:34.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:34.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:34.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:34.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:35.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:35.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:35.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.014][private$selectFields]
biodb.TRACE[2024-07-15 22:10:35.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:35.016][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:35.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.028][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.029][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.030][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.035][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:35.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.050][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:35.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:35.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:35.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:35.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:35.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:35.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:35.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:35.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.074][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.075][private$selectFields]
biodb.TRACE[2024-07-15 22:10:35.076][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:35.077][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:35.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.088][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:35.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.093][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:35.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.108][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:10:35.109][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:35.110][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:35.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:35.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:35.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:35.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:35.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:35.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:35.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:35.213][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:35.217][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:35.218][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:35.221][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:35.647][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:36.076][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:36.079][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-07-15 22:10:36.086][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-07-15 22:10:36.091][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:36.095][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:36.096][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:36.098][private$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[2024-07-15 22:10:36.522][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[2024-07-15 22:10:36.954][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:36.957][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-07-15 22:10:37.565][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-07-15 22:10:37.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.593][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.TRACE[2024-07-15 22:10:37.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:37.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:37.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:37.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:37.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:37.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:37.709][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:37.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:37.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.753][private$selectFields]
biodb.TRACE[2024-07-15 22:10:37.754][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:37.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:37.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.760][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.762][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.766][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:37.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.789][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:10:37.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:37.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.838][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.840][private$selectFields]
biodb.TRACE[2024-07-15 22:10:37.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:37.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:37.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.862][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.867][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:37.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.892][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:37.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:37.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:37.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:37.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:37.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:37.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:37.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:37.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.918][private$selectFields]
biodb.TRACE[2024-07-15 22:10:37.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:37.920][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:37.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.927][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.932][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.933][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:37.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.938][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.955][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:10:37.956][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:37.957][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:37.969][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:37.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:37.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:10:37.980][biodb::testThat]
biodb.INFO [2024-07-15 22:10:37.981][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-07-15 22:10:37.983][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:37.984][biodb::testThat]
biodb.TRACE[2024-07-15 22:10:37.987][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:10:37.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:10:37.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:37.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:37.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:37.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:37.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:37.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:38.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:38.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:38.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:38.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:38.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:38.030][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:38.034][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:38.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-15 22:10:38.037][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:38.038][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-15 22:10:38.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:38.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:38.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:38.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:38.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:38.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:38.069][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:38.073][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:38.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-15 22:10:38.075][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:38.078][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-15 22:10:38.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:38.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:38.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:38.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:38.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:38.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:38.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:38.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:38.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:38.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:38.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:38.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:38.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:38.920][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:38.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:38.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:38.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:38.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:38.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:38.951][private$selectFields]
biodb.TRACE[2024-07-15 22:10:38.952][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:38.953][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:38.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:38.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.956][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:38.965][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:38.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.970][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:38.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:38.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:38.985][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:10:38.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:38.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:38.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:39.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:39.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:39.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:39.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:39.015][private$selectFields]
biodb.TRACE[2024-07-15 22:10:39.017][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:39.018][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:39.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:39.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:39.029][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:39.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.035][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:39.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:39.050][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:39.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:39.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:39.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:40.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:40.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:40.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:40.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:40.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.816][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:40.817][private$selectFields]
biodb.TRACE[2024-07-15 22:10:40.818][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:40.819][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:40.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:40.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.831][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:40.832][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:40.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.837][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:40.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:40.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:10:40.861][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:40.863][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:40.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:40.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:40.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:40.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:40.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:40.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:40.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:40.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:40.917][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:40.922][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:40.924][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-15 22:10:40.926][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:40.928][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-15 22:10:40.932][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:40.936][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:40.938][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-15 22:10:40.940][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:40.942][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-15 22:10:40.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:40.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:40.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:40.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:40.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:40.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:40.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:40.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:40.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:40.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:40.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:40.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:40.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:40.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:40.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:40.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:40.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:40.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.027][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:41.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.058][private$selectFields]
biodb.TRACE[2024-07-15 22:10:41.059][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:41.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:41.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.066][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.070][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.073][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.078][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:10:41.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.122][private$selectFields]
biodb.TRACE[2024-07-15 22:10:41.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:41.124][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:41.125][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.129][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.136][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.140][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.142][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.143][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:41.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.158][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:41.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.188][private$selectFields]
biodb.TRACE[2024-07-15 22:10:41.189][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:41.190][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:41.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.202][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.203][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.204][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.207][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:10:41.222][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:41.223][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:41.235][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:41.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:10:41.250][biodb::testThat]
biodb.INFO [2024-07-15 22:10:41.251][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-07-15 22:10:41.252][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:41.253][biodb::testThat]
biodb.TRACE[2024-07-15 22:10:41.258][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-15 22:10:41.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-15 22:10:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.303][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[2024-07-15 22:10:41.306][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:41.310][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:41.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-15 22:10:41.313][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:41.315][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-15 22:10:41.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.355][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:41.359][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:41.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-15 22:10:41.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:41.363][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-15 22:10:41.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.407][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[2024-07-15 22:10:41.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:41.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:41.421][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:41.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:41.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:41.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:41.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:41.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:41.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.447][private$selectFields]
biodb.TRACE[2024-07-15 22:10:41.448][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:41.449][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:41.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.459][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.460][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:41.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.465][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.466][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:41.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:41.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:41.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:41.481][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-15 22:10:41.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:41.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:41.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.429][private$selectFields]
biodb.TRACE[2024-07-15 22:10:43.430][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:43.431][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:43.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.434][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.437][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.448][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.454][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.460][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:43.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.528][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:43.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.564][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.TRACE[2024-07-15 22:10:43.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.584][private$selectFields]
biodb.TRACE[2024-07-15 22:10:43.585][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:43.586][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:43.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.598][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.603][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:43.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.617][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-15 22:10:43.618][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:43.619][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:43.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:43.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:43.738][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:43.741][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:43.742][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-15 22:10:43.744][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:43.746][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-15 22:10:43.749][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:43.752][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:43.753][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-15 22:10:43.755][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:43.757][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-15 22:10:43.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:43.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:43.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:43.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:43.844][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-15 22:10:43.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.872][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.873][private$selectFields]
biodb.TRACE[2024-07-15 22:10:43.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:43.875][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:43.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.880][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.884][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.885][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.886][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.891][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.892][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:43.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.906][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-15 22:10:43.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:43.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:43.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:43.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:43.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:43.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.952][private$selectFields]
biodb.TRACE[2024-07-15 22:10:43.953][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:43.954][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:43.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.965][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.967][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:43.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.972][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.973][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:43.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:43.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:43.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:43.988][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-15 22:10:43.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:43.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:43.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:44.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:44.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:44.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:44.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:44.015][private$selectFields]
biodb.TRACE[2024-07-15 22:10:44.016][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-15 22:10:44.017][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-15 22:10:44.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:44.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:44.029][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-15 22:10:44.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.031][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.034][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-15 22:10:44.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:44.049][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-15 22:10:44.050][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-15 22:10:44.051][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-15 22:10:44.081][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:44.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-15 22:10:44.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:44.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-15 22:10:44.094][biodb::testThat]
biodb.INFO [2024-07-15 22:10:44.095][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-07-15 22:10:44.097][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:44.098][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:44.100][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-15 22:10:44.101][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:10:44.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-15 22:10:44.104][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:10:44.106][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:44.108][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:44.109][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:44.110][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:44.111][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:44.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:44.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:44.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:44.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:44.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:44.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:44.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:44.129][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-07-15 22:10:44.132][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:44.133][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:44.135][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-07-15 22:10:44.663][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-07-15 22:10:45.889][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:45.893][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-07-15 22:10:45.901][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-07-15 22:10:45.905][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-07-15 22:10:45.907][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:45.909][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:10:45.910][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:45.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:45.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:45.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:45.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:45.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:45.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:45.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:45.930][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:45.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:45.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.934][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:45.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:45.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.941][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:45.942][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:45.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.944][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.945][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:45.946][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:45.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.949][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:45.951][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:45.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.953][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:45.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:45.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.958][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:45.959][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:45.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.962][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:45.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:45.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.966][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.967][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:45.968][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:45.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.970][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.971][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:45.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:45.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.976][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:45.977][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:45.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:45.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:45.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:45.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:45.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:45.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:45.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:45.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:45.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:45.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:45.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:46.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:46.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:46.028][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-07-15 22:10:46.029][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-15 22:10:46.048][biodb::testThat]
biodb.INFO [2024-07-15 22:10:46.049][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-15 22:10:46.050][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:46.051][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:46.060][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-07-15 22:10:46.061][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-07-15 22:10:46.062][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-07-15 22:10:46.064][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-07-15 22:10:46.065][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-07-15 22:10:46.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:10:46.068][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:10:46.069][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:46.070][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:10:46.071][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:10:46.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:46.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:46.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:46.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:46.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:46.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:46.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:46.088][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-07-15 22:10:46.091][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:46.092][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:46.094][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-07-15 22:10:46.514][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-07-15 22:10:46.938][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:46.942][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-07-15 22:10:46.946][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-07-15 22:10:46.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:46.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:46.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:46.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:46.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:46.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:46.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:46.966][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-07-15 22:10:46.970][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:46.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:46.972][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-07-15 22:10:47.400][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-07-15 22:10:47.841][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:47.844][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-07-15 22:10:47.849][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-07-15 22:10:47.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:47.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:47.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:47.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:47.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:47.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:47.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:47.867][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-07-15 22:10:47.870][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:47.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:47.873][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-07-15 22:10:48.291][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-07-15 22:10:48.725][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:48.728][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-07-15 22:10:48.773][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-07-15 22:10:48.786][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-07-15 22:10:48.804][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:10:48.807][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-07-15 22:10:48.808][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-07-15 22:10:48.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:48.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:48.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:48.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:48.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:48.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:48.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:48.858][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.868][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:48.869][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:48.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.872][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:48.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:48.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.876][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:48.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:48.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:48.883][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:48.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.885][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.886][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:48.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:48.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.891][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:48.892][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:48.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.894][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:48.897][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:48.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.899][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.900][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:48.901][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:48.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.905][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:48.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:48.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:48.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:48.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.913][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:48.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:48.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:48.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:48.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:48.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:48.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:48.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:48.962][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[2024-07-15 22:10:48.965][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:48.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:48.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.974][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:48.975][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:48.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:48.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:48.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.983][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:48.984][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:48.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.986][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:48.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:48.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.993][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:48.994][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:48.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:48.997][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:48.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:49.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:49.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.004][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.013][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.014][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.016][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.022][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:49.023][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:49.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:49.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:49.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.031][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.032][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.040][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:49.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:49.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:49.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:49.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.049][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:49.050][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:49.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.054][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:49.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:49.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.058][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:49.059][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:49.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:49.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:49.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:49.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:49.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:49.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:49.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:49.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:49.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:49.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:10:49.118][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.122][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.138][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:49.139][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:49.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.142][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:10:49.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:10:49.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.147][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:49.148][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:49.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.151][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:10:49.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:10:49.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.155][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:49.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:49.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:10:49.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:10:49.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.164][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.166][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:10:49.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.173][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.178][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:10:49.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.183][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:49.184][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:49.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.186][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:10:49.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:10:49.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.201][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:49.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:49.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:49.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:49.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:49.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:49.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:10:49.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:10:49.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:49.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:49.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:10:49.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:10:49.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:10:49.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:49.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:10:49.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:10:49.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:49.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:10:49.296][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-07-15 22:10:49.297][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-15 22:10:49.298][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-07-15 22:10:49.332][biodb::testThat]
biodb.INFO [2024-07-15 22:10:49.333][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-07-15 22:10:49.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:49.336][biodb::testThat]
biodb.INFO [2024-07-15 22:10:49.364][biodb::testThat]
biodb.INFO [2024-07-15 22:10:49.366][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-07-15 22:10:49.367][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:49.368][biodb::testThat]
biodb.INFO [2024-07-15 22:10:49.390][biodb::testThat]
biodb.INFO [2024-07-15 22:10:49.391][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-07-15 22:10:49.392][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:49.394][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:49.396][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:49.400][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:49.401][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:49.403][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:49.899][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:50.516][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:50.519][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-07-15 22:10:50.527][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-07-15 22:10:50.549][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:10:50.551][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:10:50.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:50.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:10:50.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:50.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:10:50.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:10:50.558][ef$get] fields variable is a list.
biodb.INFO [2024-07-15 22:10:50.560][biodb::testThat]
biodb.INFO [2024-07-15 22:10:50.561][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-07-15 22:10:50.562][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:50.563][biodb::testThat]
biodb.ERROR[2024-07-15 22:10:50.579][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-07-15 22:10:50.594][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-07-15 22:10:50.611][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:10:50.613][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:10:50.615][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:10:50.616][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:10:50.617][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:50.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:50.619][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.621][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:10:50.633][biodb::testContext]
biodb.INFO [2024-07-15 22:10:50.634][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:50.635][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-07-15 22:10:50.636][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:50.637][biodb::testContext]
biodb.INFO [2024-07-15 22:10:50.640][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:10:50.642][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:10:50.647][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:50.648][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:10:50.649][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.652][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[2024-07-15 22:10:50.653][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:10:50.654][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.658][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:10:50.659][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.663][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:10:50.664][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:10:50.666][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:10:50.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.669][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:10:50.671][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:10:50.672][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.684][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:10:50.685][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:10:50.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.689][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:10:50.690][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:10:50.692][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:10:50.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.696][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:10:50.697][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.701][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:10:50.702][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:10:50.703][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:10:50.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.706][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:10:50.708][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:10:50.709][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:10:50.710][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:10:50.711][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:10:50.712][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:10:50.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.716][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:10:50.717][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:10:50.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.720][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[2024-07-15 22:10:50.721][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:10:50.722][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:10:50.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.726][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:10:50.728][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:10:50.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.732][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:10:50.733][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:10:50.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.737][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:10:50.738][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:10:50.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.742][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:10:50.743][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:10:50.747][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:10:50.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.751][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:10:50.752][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:10:50.754][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:10:50.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.758][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:10:50.760][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.761][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:10:50.762][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.763][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:50.764][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.765][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.766][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.767][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.768][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:10:50.769][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:50.771][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.772][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:10:50.773][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:50.774][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.775][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.776][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:50.776][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:50.776][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:50.776][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:10:50.776][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:10:50.777][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:50.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.780][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:50.781][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.783][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.784][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.785][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:50.786][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:50.787][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.788][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.790][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:10:50.791][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.793][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:10:50.794][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.795][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:50.796][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.797][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.798][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.799][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.800][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:10:50.801][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:50.803][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.804][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:10:50.805][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:50.806][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.807][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:50.808][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:50.808][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:50.808][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:10:50.808][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:10:50.809][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:50.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:50.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.815][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.816][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.817][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:50.818][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:50.819][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.820][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.821][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:10:50.823][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.824][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:10:50.825][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.826][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:50.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.828][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.831][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.832][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:10:50.833][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:50.834][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.835][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:10:50.836][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:50.837][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.838][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.839][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.840][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:50.841][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.842][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.843][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:50.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.845][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.846][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.847][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:50.849][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:50.850][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.851][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.852][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:10:50.854][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.855][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:10:50.856][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.857][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:50.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.860][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.861][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.862][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.863][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:10:50.868][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:50.869][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.870][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:10:50.871][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:50.872][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.874][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:50.875][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.876][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:50.877][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.878][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.879][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:50.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:50.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:50.882][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:50.883][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.884][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:50.885][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:50.886][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:50.887][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:50.888][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:50.889][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.905][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[2024-07-15 22:10:50.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.920][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.DEBUG[2024-07-15 22:10:50.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.939][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[2024-07-15 22:10:50.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:50.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:50.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:50.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:50.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:50.973][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[2024-07-15 22:10:50.975][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:10:50.976][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:10:50.977][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:10:50.979][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:10:50.980][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:10:50.982][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:10:50.983][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:10:50.984][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:10:50.986][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:10:50.987][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:10:50.989][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:10:50.990][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:10:50.992][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:10:50.993][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:10:50.994][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:10:50.996][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:10:50.997][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:10:50.998][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:10:51.000][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:10:51.001][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:10:51.003][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:10:51.004][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:10:51.006][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:10:51.007][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:10:51.009][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:10:51.010][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:10:51.012][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:10:51.013][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:10:51.015][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:10:51.016][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:10:51.017][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:10:51.019][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:10:51.020][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:10:51.022][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:10:51.023][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:10:51.025][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:10:51.027][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:10:51.028][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:10:51.029][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:10:51.031][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:10:51.033][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:10:51.036][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:10:51.038][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:10:51.039][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:10:51.041][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:10:51.042][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:10:51.044][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:10:51.045][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:10:51.047][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:10:51.048][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:10:51.050][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:10:51.058][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:10:51.060][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:10:51.061][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:10:51.063][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:10:51.064][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:10:51.065][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:10:51.067][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:10:51.068][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:10:51.070][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:10:51.071][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:10:51.073][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:10:51.074][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:10:51.075][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:10:51.077][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:10:51.078][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:10:51.080][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:10:51.081][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:10:51.082][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:10:51.084][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:10:51.085][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:10:51.087][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:10:51.088][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:10:51.089][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:10:51.091][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:10:51.092][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:10:51.094][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:10:51.095][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:10:51.096][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:10:51.098][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:10:51.099][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:10:51.101][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:10:51.102][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:10:51.103][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:10:51.106][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:10:51.107][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:51.108][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.110][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.131][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[2024-07-15 22:10:51.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.138][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.DEBUG[2024-07-15 22:10:51.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.151][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[2024-07-15 22:10:51.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.171][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.DEBUG[2024-07-15 22:10:51.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:51.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:51.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:51.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:51.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:51.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:51.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:51.225][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[2024-07-15 22:10:51.228][biodb$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:10:51.229][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:10:51.231][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:51.232][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:10:51.233][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:51.234][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:51.235][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:51.237][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:51.238][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:51.239][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:10:51.240][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:10:51.241][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:51.242][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:51.243][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:10:51.244][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:10:51.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:10:51.246][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:51.247][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:51.247][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:51.247][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:51.248][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:10:51.249][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:51.250][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:51.251][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:51.252][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:51.253][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:51.254][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:51.255][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:51.255][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:10:51.256][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:51.257][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:51.258][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:51.259][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:10:51.259][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:10:51.265][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:10:51.266][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:10:51.268][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:10:51.269][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:10:51.271][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:10:51.272][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:10:51.276][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:10:51.277][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:10:51.278][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:10:51.280][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:10:51.282][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:10:51.283][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:10:51.779][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:10:51.781][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:10:51.783][biodb::testThat]
biodb.INFO [2024-07-15 22:10:51.784][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-07-15 22:10:51.785][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:51.786][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:51.790][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:10:51.796][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:51.797][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:51.798][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-07-15 22:10:52.215][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-07-15 22:10:52.726][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:52.739][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-07-15 22:10:52.758][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-07-15 22:10:52.764][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:52.768][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:52.769][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:52.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:53.188][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:53.606][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:53.610][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-07-15 22:10:53.616][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-07-15 22:10:53.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:53.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:53.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:53.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:53.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:53.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:53.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:53.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:53.643][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:53.644][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:53.646][private$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[2024-07-15 22:10:54.064][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[2024-07-15 22:10:54.509][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:54.512][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-07-15 22:10:54.517][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-07-15 22:10:54.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.577][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:54.580][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:54.582][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-15 22:10:54.583][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:54.585][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-15 22:10:54.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.601][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:54.605][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:54.606][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-15 22:10:54.607][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:54.609][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-15 22:10:54.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.641][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:54.644][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:54.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-15 22:10:54.647][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:54.649][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-15 22:10:54.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.663][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".
biodb.DEBUG[2024-07-15 22:10:54.665][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[2024-07-15 22:10:54.669][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:54.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-15 22:10:54.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:54.674][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-15 22:10:54.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:54.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:54.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:54.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:54.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:54.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:54.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:54.691][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:54.695][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:54.696][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:54.698][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:55.129][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:55.571][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:55.574][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-07-15 22:10:55.579][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-07-15 22:10:55.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:55.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:55.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:55.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:55.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:55.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:55.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:10:55.607][biodb::testThat]
biodb.INFO [2024-07-15 22:10:55.608][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-07-15 22:10:55.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:55.610][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:55.614][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:55.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:55.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:55.621][private$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[2024-07-15 22:10:56.050][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[2024-07-15 22:10:56.482][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:56.484][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-07-15 22:10:56.490][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-07-15 22:10:56.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:56.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:56.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:56.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:56.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:56.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:56.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:56.509][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:56.514][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:56.515][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:56.517][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-15 22:10:56.941][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-15 22:10:57.364][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:57.366][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-07-15 22:10:57.371][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-07-15 22:10:57.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:10:57.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:10:57.396][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:10:57.398][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:10:57.399][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:10:57.400][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:10:57.401][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.403][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.405][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:10:57.411][biodb::testContext]
biodb.INFO [2024-07-15 22:10:57.412][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:57.414][biodb::testContext] Test context - Test web services
biodb.INFO [2024-07-15 22:10:57.415][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:57.416][biodb::testContext]
biodb.INFO [2024-07-15 22:10:57.418][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:10:57.421][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:10:57.426][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:57.427][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:10:57.428][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.432][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:10:57.433][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.437][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:10:57.439][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.443][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:10:57.444][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:10:57.445][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:10:57.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.449][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:10:57.450][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:10:57.451][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.455][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:10:57.456][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:10:57.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.460][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:10:57.461][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:10:57.462][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:10:57.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.466][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:10:57.468][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.472][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:10:57.473][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:10:57.474][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:10:57.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.478][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:10:57.479][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:10:57.480][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:10:57.481][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:10:57.482][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:10:57.483][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:10:57.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.487][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:10:57.488][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:10:57.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.492][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:10:57.494][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:10:57.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.498][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:10:57.499][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:10:57.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.503][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:10:57.504][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:10:57.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.508][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:10:57.509][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:10:57.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.512][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[2024-07-15 22:10:57.513][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:10:57.514][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:10:57.520][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:10:57.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.524][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:10:57.525][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:10:57.526][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:10:57.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.531][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:10:57.533][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.534][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:10:57.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:57.537][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.538][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.539][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.541][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:10:57.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:57.544][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.545][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:10:57.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:57.547][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.549][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:57.549][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:57.549][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:57.549][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:10:57.549][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:10:57.550][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:57.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.553][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:57.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.558][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.559][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:57.560][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:57.561][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.562][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.563][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:10:57.565][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.566][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:10:57.567][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.569][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:57.570][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.571][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.583][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.585][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:10:57.586][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:57.587][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.588][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:10:57.590][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:57.591][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.592][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.593][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:57.593][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:57.593][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:57.593][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:10:57.593][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:10:57.594][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:57.595][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.596][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.597][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:57.598][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.599][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.600][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.601][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.602][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:57.603][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:57.604][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.605][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.607][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:10:57.608][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.610][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:10:57.611][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.612][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:57.613][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.614][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.615][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.616][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.617][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:10:57.618][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:57.619][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.620][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:10:57.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:57.623][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.624][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.625][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.626][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:57.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.629][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:57.630][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.631][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.632][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.633][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.634][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:57.635][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:57.636][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.637][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.638][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:10:57.640][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.641][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:10:57.643][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.645][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:57.647][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.648][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.649][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.651][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.652][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:10:57.653][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:57.654][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.655][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:10:57.656][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:57.657][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.658][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:57.659][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.660][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:10:57.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.662][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.663][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:57.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:57.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:57.666][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:57.668][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.669][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:57.670][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:57.671][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:57.672][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:10:57.673][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:57.674][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.690][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[2024-07-15 22:10:57.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.720][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[2024-07-15 22:10:57.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.739][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[2024-07-15 22:10:57.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.761][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:10:57.763][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:10:57.764][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:10:57.765][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:10:57.767][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:10:57.768][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:10:57.770][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:10:57.771][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:10:57.772][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:10:57.774][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:10:57.775][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:10:57.776][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:10:57.778][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:10:57.779][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:10:57.780][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:10:57.782][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:10:57.783][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:10:57.785][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:10:57.786][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:10:57.787][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:10:57.789][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:10:57.790][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:10:57.792][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:10:57.793][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:10:57.794][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:10:57.796][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:10:57.797][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:10:57.798][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:10:57.800][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:10:57.801][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:10:57.803][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:10:57.804][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:10:57.805][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:10:57.807][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:10:57.808][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:10:57.809][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:10:57.811][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:10:57.812][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:10:57.814][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:10:57.815][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:10:57.817][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:10:57.818][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:10:57.819][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:10:57.821][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:10:57.822][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:10:57.824][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:10:57.825][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:10:57.826][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:10:57.828][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:10:57.829][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:10:57.831][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:10:57.832][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:10:57.833][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:10:57.835][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:10:57.836][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:10:57.837][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:10:57.839][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:10:57.840][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:10:57.842][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:10:57.843][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:10:57.844][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:10:57.846][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:10:57.847][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:10:57.849][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:10:57.850][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:10:57.851][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:10:57.853][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:10:57.854][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:10:57.855][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:10:57.857][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:10:57.858][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:10:57.859][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:10:57.861][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:10:57.862][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:10:57.864][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:10:57.865][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:10:57.866][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:10:57.868][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:10:57.869][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:10:57.871][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:10:57.872][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:10:57.873][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:10:57.875][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:10:57.876][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:10:57.878][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:10:57.880][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:57.880][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.884][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.DEBUG[2024-07-15 22:10:57.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.920][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.DEBUG[2024-07-15 22:10:57.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.973][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[2024-07-15 22:10:57.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:57.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:57.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:57.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:57.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:57.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:57.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:57.999][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[2024-07-15 22:10:58.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:58.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:58.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:58.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:58.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:58.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:58.006][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.DEBUG[2024-07-15 22:10:58.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:58.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:58.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:58.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:58.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:58.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:58.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:58.017][biodb$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:10:58.020][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:10:58.023][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:58.024][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:10:58.026][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:58.027][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:10:58.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:58.030][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:10:58.031][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:58.033][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:10:58.034][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:10:58.036][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:10:58.037][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:58.039][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:10:58.040][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:10:58.041][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:10:58.043][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:10:58.044][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:10:58.044][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:10:58.044][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:10:58.046][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:10:58.047][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:58.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:58.050][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:10:58.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:10:58.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:10:58.054][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:10:58.055][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:10:58.055][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:10:58.056][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:10:58.057][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:10:58.059][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:10:58.060][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:10:58.060][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:10:58.062][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:10:58.064][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:10:58.066][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:10:58.068][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:10:58.070][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:10:58.926][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:10:58.933][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:10:58.934][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:10:58.935][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:10:58.938][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:10:58.940][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:10:58.941][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:10:58.942][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:10:58.945][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:10:58.947][biodb::testThat]
biodb.INFO [2024-07-15 22:10:58.949][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-07-15 22:10:58.951][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:10:58.952][biodb::testThat]
biodb.DEBUG[2024-07-15 22:10:58.955][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:10:58.960][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:10:58.962][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:10:58.964][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:10:59.028][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:10:59.034][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:10:59.038][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:10:59.040][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:10:59.041][private$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[2024-07-15 22:10:59.467][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[2024-07-15 22:10:59.900][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:10:59.904][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-07-15 22:10:59.911][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-07-15 22:10:59.929][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:10:59.931][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:10:59.933][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:10:59.934][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:10:59.935][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:10:59.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:10:59.937][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:10:59.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:10:59.939][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-15 22:10:59.946][biodb::testContext]
biodb.INFO [2024-07-15 22:10:59.947][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:59.948][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-07-15 22:10:59.949][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-15 22:10:59.950][biodb::testContext]
biodb.INFO [2024-07-15 22:10:59.953][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:10:59.955][self$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-15 22:10:59.960][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:10:59.961][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-15 22:10:59.962][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-15 22:10:59.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:59.966][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-15 22:10:59.967][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-15 22:10:59.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:59.971][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-15 22:10:59.972][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-15 22:10:59.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:59.976][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-15 22:10:59.977][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-15 22:10:59.978][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-15 22:10:59.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.981][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[2024-07-15 22:10:59.983][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-15 22:10:59.984][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-15 22:10:59.985][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-15 22:10:59.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:59.989][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-15 22:10:59.990][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-15 22:10:59.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:10:59.994][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-15 22:10:59.995][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-15 22:10:59.996][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-15 22:10:59.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:10:59.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:10:59.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.000][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-15 22:11:00.001][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-15 22:11:00.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.005][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-15 22:11:00.006][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-15 22:11:00.008][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-15 22:11:00.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.012][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:11:00.013][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-15 22:11:00.014][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-15 22:11:00.015][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-15 22:11:00.016][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-15 22:11:00.017][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-15 22:11:00.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.022][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-15 22:11:00.024][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-15 22:11:00.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.028][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-15 22:11:00.029][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-15 22:11:00.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.033][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-15 22:11:00.034][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-15 22:11:00.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.038][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-15 22:11:00.040][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-15 22:11:00.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.044][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-15 22:11:00.045][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-15 22:11:00.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.049][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-15 22:11:00.050][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-15 22:11:00.055][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-15 22:11:00.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.059][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-15 22:11:00.060][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-15 22:11:00.062][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-15 22:11:00.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.068][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-15 22:11:00.070][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.071][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-15 22:11:00.072][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.073][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:11:00.075][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.076][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.077][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.078][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.079][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:11:00.080][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:11:00.082][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.083][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-15 22:11:00.085][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:11:00.086][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.087][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.088][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:11:00.088][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:11:00.088][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:11:00.088][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:11:00.088][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:11:00.089][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:11:00.090][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.091][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.092][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:11:00.093][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.094][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.095][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.097][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.098][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:11:00.099][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:11:00.100][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.101][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.102][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-15 22:11:00.104][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.105][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:11:00.106][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.108][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:11:00.109][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.110][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.111][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.112][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.113][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:11:00.114][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:11:00.115][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.116][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-15 22:11:00.118][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:11:00.119][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.120][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.121][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:11:00.121][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:11:00.121][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:11:00.121][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-15 22:11:00.121][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-15 22:11:00.122][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:11:00.123][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.125][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:11:00.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.127][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.129][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.130][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.131][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:11:00.132][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:11:00.133][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.134][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.135][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-15 22:11:00.137][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.138][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-15 22:11:00.139][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.141][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:11:00.142][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.143][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.144][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.145][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.156][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-15 22:11:00.158][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:11:00.159][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.160][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-15 22:11:00.161][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:11:00.162][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.164][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.165][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.166][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:11:00.167][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.168][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.169][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:11:00.170][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.171][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.172][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.173][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.174][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:11:00.175][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:11:00.176][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.177][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.179][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-15 22:11:00.181][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.182][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-15 22:11:00.183][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.184][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:11:00.185][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.186][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.187][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.188][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.189][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-15 22:11:00.191][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:11:00.192][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.193][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-15 22:11:00.194][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:11:00.195][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.196][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.197][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.198][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-15 22:11:00.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.202][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:11:00.203][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.204][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.205][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.206][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.207][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:11:00.208][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:11:00.209][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.210][self$setPropertyValue]
biodb.DEBUG[2024-07-15 22:11:00.212][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:11:00.213][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.275][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[2024-07-15 22:11:00.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.300][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-15 22:11:00.302][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-15 22:11:00.303][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-15 22:11:00.305][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-15 22:11:00.306][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:11:00.308][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-15 22:11:00.310][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-15 22:11:00.311][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-15 22:11:00.313][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-15 22:11:00.314][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-15 22:11:00.315][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:11:00.317][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-15 22:11:00.318][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-15 22:11:00.320][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-15 22:11:00.321][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-15 22:11:00.323][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-15 22:11:00.324][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-15 22:11:00.325][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-15 22:11:00.327][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:11:00.328][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-15 22:11:00.330][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-15 22:11:00.331][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-15 22:11:00.333][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-15 22:11:00.334][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-15 22:11:00.336][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-15 22:11:00.337][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-15 22:11:00.339][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-15 22:11:00.340][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-15 22:11:00.341][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-15 22:11:00.343][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-15 22:11:00.344][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-15 22:11:00.346][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-15 22:11:00.347][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-15 22:11:00.348][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-15 22:11:00.350][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-15 22:11:00.351][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-15 22:11:00.353][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-15 22:11:00.354][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-15 22:11:00.355][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-15 22:11:00.357][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-15 22:11:00.358][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-15 22:11:00.360][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-15 22:11:00.361][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-15 22:11:00.362][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-15 22:11:00.364][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-15 22:11:00.365][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-15 22:11:00.367][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-15 22:11:00.368][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-15 22:11:00.370][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-15 22:11:00.371][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-15 22:11:00.373][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-15 22:11:00.374][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-15 22:11:00.375][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-15 22:11:00.377][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-15 22:11:00.378][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-15 22:11:00.380][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-15 22:11:00.381][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-15 22:11:00.383][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-15 22:11:00.384][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-15 22:11:00.386][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-15 22:11:00.387][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-15 22:11:00.389][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-15 22:11:00.390][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-15 22:11:00.391][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-15 22:11:00.393][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-15 22:11:00.394][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-15 22:11:00.396][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:11:00.397][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:11:00.398][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-15 22:11:00.400][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-15 22:11:00.401][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-15 22:11:00.403][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-15 22:11:00.404][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-15 22:11:00.405][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-15 22:11:00.407][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-15 22:11:00.408][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-15 22:11:00.410][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-15 22:11:00.411][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-15 22:11:00.412][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-15 22:11:00.414][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-15 22:11:00.415][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-15 22:11:00.417][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-15 22:11:00.418][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-15 22:11:00.420][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-15 22:11:00.422][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-15 22:11:00.423][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-15 22:11:00.424][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.428][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.542][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[2024-07-15 22:11:00.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.564][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[2024-07-15 22:11:00.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-15 22:11:00.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-15 22:11:00.575][biodb$loadDefinitions] Load definitions from file "C:/Users/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-15 22:11:00.576][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-15 22:11:00.578][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.580][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.581][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-15 22:11:00.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.584][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.585][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.586][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-15 22:11:00.587][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-15 22:11:00.588][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-15 22:11:00.590][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.591][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-15 22:11:00.592][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-15 22:11:00.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-15 22:11:00.594][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-15 22:11:00.595][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-15 22:11:00.595][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-15 22:11:00.595][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-15 22:11:00.596][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-15 22:11:00.597][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.599][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-15 22:11:00.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-15 22:11:00.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-15 22:11:00.603][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-15 22:11:00.604][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:11:00.604][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-15 22:11:00.605][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-15 22:11:00.606][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-15 22:11:00.607][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-15 22:11:00.608][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-15 22:11:00.608][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-15 22:11:00.609][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-15 22:11:00.611][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-15 22:11:00.613][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-15 22:11:00.614][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-15 22:11:00.616][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-15 22:11:00.618][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-15 22:11:00.621][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-15 22:11:00.622][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-15 22:11:00.624][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-15 22:11:00.625][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-15 22:11:00.627][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:11:00.628][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-15 22:11:00.630][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-15 22:11:00.631][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-15 22:11:00.633][biodb::testThat]
biodb.INFO [2024-07-15 22:11:00.634][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-07-15 22:11:00.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-15 22:11:00.636][biodb::testThat]
biodb.DEBUG[2024-07-15 22:11:00.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-15 22:11:00.645][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:11:00.647][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-15 22:11:00.648][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:11:00.651][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-15 22:11:00.655][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-15 22:11:00.659][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-15 22:11:00.661][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-07-15 22:11:00.663][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-15 22:11:00.665][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-07-15 22:11:00.670][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-07-15 22:11:00.671][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-15 22:11:00.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-07-15 22:11:00.674][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-15 22:11:00.676][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-15 22:11:00.677][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-15 22:11:00.678][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-15 22:11:00.679][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-15 22:11:00.680][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-15 22:11:00.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:11:00.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:00.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:00.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:00.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:00.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:00.696][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[2024-07-15 22:11:00.698][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-07-15 22:11:00.701][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-15 22:11:00.702][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-15 22:11:00.704][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-07-15 22:11:01.158][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-07-15 22:11:02.184][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-15 22:11:02.187][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-07-15 22:11:02.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-07-15 22:11:02.195][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-07-15 22:11:02.201][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-15 22:11:02.204][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-15 22:11:02.205][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-15 22:11:02.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-15 22:11:02.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:02.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:02.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:02.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:02.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:02.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-15 22:11:02.226][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.228][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.230][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.248][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:11:02.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:11:02.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-15 22:11:02.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-15 22:11:02.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.257][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:11:02.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:11:02.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-15 22:11:02.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-15 22:11:02.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.267][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-15 22:11:02.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-15 22:11:02.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.272][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-15 22:11:02.273][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-15 22:11:02.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.277][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:11:02.278][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:11:02.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.280][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:11:02.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-15 22:11:02.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.286][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:11:02.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:11:02.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.290][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-15 22:11:02.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-15 22:11:02.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.294][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:11:02.296][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:11:02.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:11:02.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-15 22:11:02.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.303][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:11:02.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:11:02.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.306][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-15 22:11:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-15 22:11:02.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.312][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:11:02.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:11:02.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-15 22:11:02.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-15 22:11:02.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:11:02.322][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:11:02.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-15 22:11:02.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-15 22:11:02.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-15 22:11:02.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-15 22:11:02.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-15 22:11:02.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-15 22:11:02.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-15 22:11:02.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-15 22:11:02.378][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-07-15 22:11:02.386][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-15 22:11:02.388][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-15 22:11:02.389][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-15 22:11:02.390][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-15 22:11:02.391][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-15 22:11:02.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-15 22:11:02.393][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-15 22:11:02.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-15 22:11:02.395][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-15 22:11:02.396][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
> 
> proc.time()
   user  system elapsed 
  24.57    4.71   79.82

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.442.636.29
ChebiEntry0.590.050.64