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This page was generated on 2025-01-11 11:41 -0500 (Sat, 11 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4760
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4479
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4443
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4398
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4391
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 201/2277HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.13.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-10 13:40 -0500 (Fri, 10 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 686a27c
git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    TIMEOUT  


CHECK results for biodbChebi on palomino7

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

raw results


Summary

Package: biodbChebi
Version: 1.13.0
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
StartedAt: 2025-01-10 22:57:18 -0500 (Fri, 10 Jan 2025)
EndedAt: 2025-01-10 23:06:27 -0500 (Fri, 10 Jan 2025)
EllapsedTime: 549.0 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck'
* using R Under development (unstable) (2024-10-26 r87273 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 '1.13.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbChebi' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
ChebiConn  4.2   2.36  317.55
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'biodbChebi' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"
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 [2025-01-10 23:05:06.276][biodb::testContext]
biodb.INFO [2025-01-10 23:05:06.279][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:05:06.281][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-10 23:05:06.282][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:05:06.283][biodb::testContext]
biodb.INFO [2025-01-10 23:05:06.290][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:05:06.293][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-10 23:05:06.301][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:06.303][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-10 23:05:06.304][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.309][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-10 23:05:06.328][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.333][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-10 23:05:06.335][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.340][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-10 23:05:06.341][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-10 23:05:06.343][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-10 23:05:06.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.348][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-10 23:05:06.349][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-10 23:05:06.351][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.357][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-10 23:05:06.358][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-10 23:05:06.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.363][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-10 23:05:06.365][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-10 23:05:06.366][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-10 23:05:06.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.371][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-10 23:05:06.372][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.377][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-10 23:05:06.378][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-10 23:05:06.380][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-10 23:05:06.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.385][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:05:06.386][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-10 23:05:06.388][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-10 23:05:06.389][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-10 23:05:06.390][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-10 23:05:06.392][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-10 23:05:06.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.397][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-10 23:05:06.398][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-10 23:05:06.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.403][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-10 23:05:06.404][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-10 23:05:06.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.409][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-10 23:05:06.411][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-10 23:05:06.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.426][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-10 23:05:06.428][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-10 23:05:06.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.432][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-10 23:05:06.434][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-10 23:05:06.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.438][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:05:06.439][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-10 23:05:06.443][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-10 23:05:06.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.447][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-10 23:05:06.449][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-10 23:05:06.450][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-10 23:05:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.456][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-10 23:05:06.484][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.499][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-10 23:05:06.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:06.502][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.504][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.505][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.507][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:05:06.508][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:06.510][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.511][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-10 23:05:06.512][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:06.513][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.514][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.516][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:06.516][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:06.516][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:06.516][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:05:06.516][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:05:06.517][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:06.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.520][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:06.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.525][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:06.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:06.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.529][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.531][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-10 23:05:06.533][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.534][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:05:06.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:06.537][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.539][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.540][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.541][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.542][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:05:06.543][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:06.545][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.546][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-10 23:05:06.547][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:06.548][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.549][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.551][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:06.551][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:06.551][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:06.551][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:05:06.551][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:05:06.552][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:06.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.554][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.555][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:06.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.559][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.560][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:06.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:06.563][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.565][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.566][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-10 23:05:06.568][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.569][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-10 23:05:06.570][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.571][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:06.573][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.574][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.575][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.576][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.577][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:05:06.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:06.580][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.581][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-10 23:05:06.582][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:06.583][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.585][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.586][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.587][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:06.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.590][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:06.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.595][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.596][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:06.597][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:06.598][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.599][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.601][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-10 23:05:06.603][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.604][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:05:06.605][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:06.608][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.609][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.610][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.611][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.612][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:05:06.613][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:06.615][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.616][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-10 23:05:06.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:06.619][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.620][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:06.621][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.623][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:06.624][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.626][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:06.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:06.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:06.629][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:06.631][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.632][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:06.633][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:06.634][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:06.635][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:06.639][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:06.640][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.688][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[2025-01-10 23:05:06.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.715][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[2025-01-10 23:05:06.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.744][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-10 23:05:06.748][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-10 23:05:06.750][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-10 23:05:06.751][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-10 23:05:06.753][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:05:06.754][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-10 23:05:06.756][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-10 23:05:06.757][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-10 23:05:06.759][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-10 23:05:06.760][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-10 23:05:06.762][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:05:06.763][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-10 23:05:06.765][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-10 23:05:06.766][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-10 23:05:06.768][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-10 23:05:06.769][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-10 23:05:06.771][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-10 23:05:06.773][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-10 23:05:06.774][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:05:06.776][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-10 23:05:06.777][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-10 23:05:06.779][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-10 23:05:06.780][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-10 23:05:06.782][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-10 23:05:06.783][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-10 23:05:06.785][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-10 23:05:06.787][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-10 23:05:06.788][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-10 23:05:06.790][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-10 23:05:06.791][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-10 23:05:06.793][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-10 23:05:06.794][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-10 23:05:06.796][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-10 23:05:06.797][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-10 23:05:06.799][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-10 23:05:06.800][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-10 23:05:06.802][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-10 23:05:06.804][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-10 23:05:06.805][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-10 23:05:06.807][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-10 23:05:06.808][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-10 23:05:06.810][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-10 23:05:06.811][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-10 23:05:06.813][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-10 23:05:06.814][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-10 23:05:06.816][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-10 23:05:06.818][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-10 23:05:06.819][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-10 23:05:06.821][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-10 23:05:06.822][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-10 23:05:06.824][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-10 23:05:06.825][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-10 23:05:06.827][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-10 23:05:06.828][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-10 23:05:06.830][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-10 23:05:06.831][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-10 23:05:06.833][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-10 23:05:06.835][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-10 23:05:06.836][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-10 23:05:06.838][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-10 23:05:06.839][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-10 23:05:06.841][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-10 23:05:06.842][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-10 23:05:06.844][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-10 23:05:06.845][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-10 23:05:06.847][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-10 23:05:06.848][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:05:06.850][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:05:06.851][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-10 23:05:06.853][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-10 23:05:06.855][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-10 23:05:06.856][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-10 23:05:06.858][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-10 23:05:06.859][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-10 23:05:06.861][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-10 23:05:06.862][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-10 23:05:06.864][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-10 23:05:06.865][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-10 23:05:06.867][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-10 23:05:06.868][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-10 23:05:06.870][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-10 23:05:06.872][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-10 23:05:06.873][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-10 23:05:06.897][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-10 23:05:06.900][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:05:06.903][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:06.904][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.906][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.954][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[2025-01-10 23:05:06.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:06.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:06.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:06.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:06.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:06.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:06.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:06.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:07.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.006][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[2025-01-10 23:05:07.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.014][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[2025-01-10 23:05:07.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.021][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[2025-01-10 23:05:07.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:07.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:07.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:07.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:07.046][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-10 23:05:07.055][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-10 23:05:07.057][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:07.058][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-10 23:05:07.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:07.061][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:07.062][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:07.063][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:07.064][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:07.066][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-10 23:05:07.067][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-10 23:05:07.068][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:07.069][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:07.070][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-10 23:05:07.071][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-10 23:05:07.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-10 23:05:07.074][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:07.075][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:07.075][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:07.075][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:07.076][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-10 23:05:07.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:07.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:07.080][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:07.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:07.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:07.083][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:07.084][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:07.084][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-10 23:05:07.085][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:07.086][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:07.087][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:07.089][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-10 23:05:07.089][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-10 23:05:07.094][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:05:07.096][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:05:07.098][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-10 23:05:07.100][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:05:07.101][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:05:07.103][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:05:07.124][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-10 23:05:07.126][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-10 23:05:07.130][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-10 23:05:07.133][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-10 23:05:07.137][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:05:07.138][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:05:07.140][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-10 23:05:07.141][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-10 23:05:07.158][biodb::testThat]
biodb.INFO [2025-01-10 23:05:07.160][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-10 23:05:07.161][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:07.162][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:07.214][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-01-10 23:05:07.217][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:07.221][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:07.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:07.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:07.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:07.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:07.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:07.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:07.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:07.284][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.288][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.305][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:07.306][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:07.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.309][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:07.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:07.338][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:07.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.340][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:07.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:07.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:07.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:07.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.350][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:07.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:07.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.358][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.360][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:07.367][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:07.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.370][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.371][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:07.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:07.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.376][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:07.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.379][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.381][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:07.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:07.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:07.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.389][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:07.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:07.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:07.397][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:07.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.399][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:07.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:07.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:07.407][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:07.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.409][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:07.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:07.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:07.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:07.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.419][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:07.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:07.534][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-01-10 23:05:07.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:07.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:07.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:07.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:07.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:07.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:07.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.664][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:07.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:07.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.671][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:07.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:07.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:07.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:07.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:07.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:07.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.930][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.933][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:07.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:07.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.006][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.030][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.083][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.097][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.134][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.135][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.175][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.176][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.179][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.207][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.212][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.222][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.224][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.226][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.242][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.256][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.286][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.291][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.324][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.334][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.338][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.368][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.370][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.372][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.431][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.454][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.456][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.458][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.473][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.475][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.477][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.490][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.499][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.502][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.523][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.544][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.545][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.548][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.560][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.562][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.564][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.572][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.576][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.630][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.632][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.634][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.645][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.649][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.681][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.682][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.685][ef$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:08.706][biodb::testThat]
biodb.INFO [2025-01-10 23:05:08.707][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-10 23:05:08.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:08.710][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:08.723][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-01-10 23:05:08.729][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:08.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-01-10 23:05:08.738][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:08.740][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-01-10 23:05:08.742][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:08.764][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:08.765][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:08.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:08.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:08.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:08.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:08.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:08.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:08.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:08.789][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.790][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.793][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.814][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.815][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.818][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:08.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.825][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.828][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:08.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.835][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.843][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.845][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.855][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.863][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.866][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.867][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:08.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.872][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:08.873][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.876][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.877][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:08.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.882][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.884][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.886][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.892][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.896][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:08.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:08.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.903][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:08.904][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.907][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:08.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:08.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:08.973][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-01-10 23:05:08.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-10 23:05:08.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-10 23:05:08.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-10 23:05:08.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-10 23:05:08.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:08.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-10 23:05:08.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-10 23:05:08.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:08.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:09.027][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.028][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-10 23:05:09.029][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.031][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:09.034][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.038][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:09.040][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-01-10 23:05:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:09.125][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-01-10 23:05:09.130][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-10 23:05:09.156][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:09.174][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-10 23:05:09.177][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:09.181][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-10 23:05:09.209][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:09.214][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:09.216][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:09.218][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:09.329][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-10 23:05:09.332][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-01-10 23:05:09.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:09.369][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:09.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.374][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.375][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.379][ef$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:09.392][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.394][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-10 23:05:09.395][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.396][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:09.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:09.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:09.523][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:09.527][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:09.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:09.531][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:09.533][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-01-10 23:05:09.580][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.582][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-10 23:05:09.583][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.584][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:09.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:09.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:09.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:09.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:09.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.646][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:09.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:09.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:09.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:09.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:09.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:09.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:09.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:09.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.715][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-10 23:05:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.725][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:09.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-10 23:05:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:09.730][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-10 23:05:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:09.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:09.744][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.745][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-10 23:05:09.747][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.748][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.781][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.783][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-10 23:05:09.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.785][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.797][biodb::testThat]
biodb.INFO [2025-01-10 23:05:09.799][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-10 23:05:09.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:09.801][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:09.806][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-01-10 23:05:10.872][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-01-10 23:05:11.955][biodb::testThat]
biodb.INFO [2025-01-10 23:05:11.957][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-10 23:05:11.958][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:11.960][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:12.390][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-01-10 23:05:12.807][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:12.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:12.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:12.811][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:12.813][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:12.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:12.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:12.819][ef$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:12.822][biodb::testThat]
biodb.INFO [2025-01-10 23:05:12.824][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-01-10 23:05:12.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:12.828][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:12.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:12.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:12.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:12.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:12.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:12.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:12.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:12.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:12.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:12.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:12.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:12.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:12.990][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:12.991][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:12.993][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:12.996][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-10 23:05:13.068][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:13.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:13.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:13.076][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:13.078][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-01-10 23:05:13.157][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-10 23:05:13.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-10 23:05:13.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:13.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:13.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:13.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:13.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:13.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:13.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:13.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:13.212][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:13.216][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:13.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-10 23:05:13.220][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:14.440][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-10 23:05:14.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:14.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:14.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:14.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:14.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:14.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:14.461][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[2025-01-10 23:05:14.463][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-01-10 23:05:14.531][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:14.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-01-10 23:05:14.537][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:14.539][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:14.541][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:14.543][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:14.545][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:14.546][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:14.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:14.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:14.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:14.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:14.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:14.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:14.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:14.571][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-01-10 23:05:14.575][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:14.576][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:14.578][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-01-10 23:05:14.960][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-01-10 23:05:15.289][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:15.293][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-01-10 23:05:15.309][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-01-10 23:05:15.315][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-01-10 23:05:15.319][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:15.321][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:15.322][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:15.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:15.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:15.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:15.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:15.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:15.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:15.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:15.340][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.343][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.350][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:15.351][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:15.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.354][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.363][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:15.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:15.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:15.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:15.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.372][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.374][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:15.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:15.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.380][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:15.382][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:15.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.386][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:15.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:15.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:15.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:15.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.399][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:15.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:15.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:15.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:15.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.409][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.411][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:15.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.415][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.417][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:15.427][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:15.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.431][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:15.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:15.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:15.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:15.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.444][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:15.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:15.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:15.452][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:15.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.454][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:15.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:15.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.460][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:15.462][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:15.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.464][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.465][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:15.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:15.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:15.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:15.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:15.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:15.541][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-01-10 23:05:15.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:15.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:15.588][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:15.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-10 23:05:15.592][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:15.610][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-10 23:05:15.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:15.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:15.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:15.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:15.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:15.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:15.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:15.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:15.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:15.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:15.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:15.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:15.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:15.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:15.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:15.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:15.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:15.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:15.682][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-01-10 23:05:15.683][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:15.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-01-10 23:05:15.687][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:15.689][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:15.690][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:15.691][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:15.693][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:15.694][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:15.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:15.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:15.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:15.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:15.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:15.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:15.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:15.729][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-01-10 23:05:15.744][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:15.745][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:15.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-01-10 23:05:16.367][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-01-10 23:05:16.675][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:16.678][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-01-10 23:05:16.683][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-01-10 23:05:16.687][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-01-10 23:05:16.690][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:16.692][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:16.694][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:16.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:16.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:16.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:16.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:16.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:16.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:16.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:16.714][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.715][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.718][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.725][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:16.726][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:16.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.735][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:16.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:16.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.739][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:16.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:16.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:16.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:16.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.749][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:16.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:16.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.756][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:16.757][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:16.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.760][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:16.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:16.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:16.768][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:16.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.770][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.772][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:16.773][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.775][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.777][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:16.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.782][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:16.783][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:16.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.786][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:16.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.792][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:16.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:16.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.796][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:16.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:16.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.803][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:16.804][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:16.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.808][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:16.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:16.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:16.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:16.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.816][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:16.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:16.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:16.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:16.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:16.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:16.880][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-01-10 23:05:16.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:16.937][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:16.941][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:16.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:16.944][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:16.947][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-10 23:05:16.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:16.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:16.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:16.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:16.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:16.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:16.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:16.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:16.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:16.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:16.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:16.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:16.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:16.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:17.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:17.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:17.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:17.004][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[2025-01-10 23:05:17.005][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-01-10 23:05:17.006][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:17.008][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-01-10 23:05:17.010][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:17.011][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:17.013][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:17.014][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:17.015][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:17.016][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:17.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:17.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:17.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:17.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:17.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:17.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:17.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:17.047][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-01-10 23:05:17.050][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:17.051][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:17.052][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-01-10 23:05:17.594][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-01-10 23:05:17.923][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:17.928][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-01-10 23:05:17.934][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-01-10 23:05:17.939][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-01-10 23:05:17.941][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:17.943][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:17.944][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:17.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:17.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:17.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:17.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:17.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:17.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:17.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:17.984][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:17.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:17.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:17.988][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:17.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:17.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:17.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:17.995][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:17.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:17.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:17.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.000][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:18.001][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:18.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.003][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:18.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:18.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.010][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:18.012][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:18.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.014][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.015][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:18.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:18.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.020][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:18.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.024][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:18.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:18.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.031][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:18.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:18.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:18.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:18.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.041][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:18.043][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:18.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.045][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.046][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:18.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:18.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.051][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:18.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:18.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.055][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:18.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:18.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:18.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:18.106][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-01-10 23:05:18.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:18.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:18.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:18.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:18.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:18.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:18.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:18.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:18.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:18.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:18.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:18.152][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-01-10 23:05:18.153][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:18.155][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-01-10 23:05:18.157][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:18.158][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:18.160][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:18.161][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:18.162][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:18.163][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:18.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:18.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:18.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:18.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:18.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:18.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:18.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:18.194][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-01-10 23:05:18.198][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:18.199][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:18.201][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-01-10 23:05:18.928][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-01-10 23:05:19.238][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:19.241][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-01-10 23:05:19.246][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-01-10 23:05:19.250][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-01-10 23:05:19.253][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:19.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:19.256][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:19.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:19.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:19.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:19.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:19.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:19.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:19.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:19.273][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.275][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.277][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.283][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:19.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:19.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.289][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:19.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:19.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.292][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:19.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:19.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.297][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.299][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:19.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:19.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.303][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:19.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:19.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.308][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:19.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.313][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:19.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:19.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.318][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.319][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:19.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:19.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.323][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.330][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:19.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:19.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:19.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:19.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.340][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:19.341][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:19.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.349][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:19.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:19.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:19.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:19.400][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-01-10 23:05:19.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:19.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:19.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:19.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:19.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:19.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:19.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:19.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:19.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:19.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:19.440][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-01-10 23:05:19.442][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:19.443][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-01-10 23:05:19.445][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:19.447][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:19.448][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:19.449][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:19.451][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:19.452][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:19.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:19.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:19.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:19.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:19.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:19.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:19.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:19.469][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-01-10 23:05:19.472][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:19.473][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:19.475][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-01-10 23:05:19.834][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-01-10 23:05:20.141][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:20.144][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-01-10 23:05:20.149][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-01-10 23:05:20.153][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-01-10 23:05:20.155][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:20.157][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:20.158][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:20.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:20.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:20.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:20.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:20.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:20.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:20.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:20.181][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.185][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.202][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:20.203][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:20.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.205][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.207][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:20.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:20.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:20.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:20.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.218][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:20.219][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:20.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.221][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:20.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:20.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.226][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.228][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:20.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.233][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:20.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:20.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.238][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:20.239][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:20.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.242][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:20.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:20.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.249][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:20.250][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:20.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.254][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:20.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:20.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.259][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:20.261][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:20.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.263][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:20.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:20.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:20.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:20.315][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-01-10 23:05:20.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:20.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:20.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:20.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:20.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:20.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:20.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:20.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:20.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:20.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:20.355][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-01-10 23:05:20.356][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:20.358][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-01-10 23:05:20.360][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:20.361][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:20.363][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:20.369][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:20.371][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:20.372][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:20.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:20.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:20.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:20.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:20.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:20.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:20.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:20.402][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-01-10 23:05:20.405][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:20.406][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:20.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-01-10 23:05:20.801][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-01-10 23:05:21.128][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:21.131][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-01-10 23:05:21.136][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-01-10 23:05:21.140][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-01-10 23:05:21.142][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:21.144][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:21.145][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:21.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:21.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:21.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:21.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:21.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:21.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:21.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:21.164][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.179][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:21.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:21.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.184][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.186][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:21.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:21.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.194][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:21.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:21.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:21.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:21.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.210][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:21.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:21.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:21.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:21.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:21.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:21.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.233][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:21.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:21.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:21.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:21.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.249][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.252][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:21.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:21.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.260][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:21.262][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.269][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:21.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.277][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:21.279][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:21.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.283][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:21.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:21.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.292][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:21.294][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:21.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:21.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.308][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:21.310][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:21.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.313][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.315][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:21.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:21.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:21.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:21.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.335][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:21.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:21.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:21.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:21.389][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-01-10 23:05:21.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:21.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:21.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:21.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:21.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:21.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:21.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:21.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:21.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:21.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:21.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:21.425][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-01-10 23:05:21.426][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:21.428][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-01-10 23:05:21.430][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:21.431][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:21.433][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:21.434][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:21.435][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:21.436][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:21.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:21.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:21.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:21.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:21.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:21.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:21.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:21.459][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-01-10 23:05:21.463][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:21.464][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:21.465][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-01-10 23:05:21.871][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-01-10 23:05:22.195][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:22.199][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-01-10 23:05:22.206][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-01-10 23:05:22.210][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-01-10 23:05:22.213][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:22.214][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:22.216][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:22.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:22.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:22.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:22.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:22.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:22.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:22.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:22.233][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.234][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:22.276][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:22.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.280][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.281][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:22.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:22.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.286][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:22.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:22.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:22.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:22.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:22.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:22.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:22.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:22.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.320][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:22.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:22.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.325][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:22.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:22.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.336][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:22.338][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.342][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:22.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.350][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:22.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:22.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.354][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:22.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.361][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:22.362][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:22.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.364][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:22.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:22.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:22.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:22.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.375][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:22.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:22.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:22.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.385][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:22.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:22.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:22.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:22.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:22.442][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-01-10 23:05:22.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:22.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:22.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:22.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:22.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:22.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:22.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:22.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:22.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:22.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:22.491][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-01-10 23:05:22.492][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:22.494][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-01-10 23:05:22.496][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:22.497][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:22.499][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:22.501][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:22.503][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:22.505][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:22.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:22.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:22.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:22.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:22.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:22.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:22.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:22.540][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-01-10 23:05:22.545][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:22.547][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:22.550][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-01-10 23:05:22.911][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-01-10 23:05:23.226][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:23.229][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-01-10 23:05:23.236][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-01-10 23:05:23.241][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-01-10 23:05:23.245][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:23.247][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:23.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:23.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:23.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:23.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:23.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:23.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:23.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:23.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:23.279][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.283][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.289][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:23.291][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:23.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.293][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:23.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.300][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:23.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:23.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.303][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.311][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:23.312][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:23.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.315][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:23.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:23.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:23.322][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:23.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.325][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:23.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:23.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.333][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:23.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:23.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.337][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.339][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:23.340][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.342][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:23.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:23.350][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:23.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.353][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:23.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:23.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.360][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:23.361][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:23.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.365][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:23.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.380][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:23.382][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:23.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.384][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:23.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:23.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:23.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:23.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.395][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:23.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:23.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:23.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:23.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:23.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:23.452][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-01-10 23:05:23.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:23.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:23.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:23.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:23.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:23.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:23.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:23.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:23.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:23.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:23.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:23.482][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-01-10 23:05:23.483][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:23.485][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-01-10 23:05:23.487][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:23.489][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:23.490][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:23.492][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:23.493][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:23.494][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:23.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:23.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:23.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:23.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:23.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:23.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:23.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:23.511][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-01-10 23:05:23.515][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:23.516][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:23.517][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-01-10 23:05:23.884][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-01-10 23:05:24.208][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:24.211][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-01-10 23:05:24.216][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-01-10 23:05:24.220][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-01-10 23:05:24.222][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:24.224][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:24.226][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:24.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:24.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:24.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:24.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:24.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:24.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:24.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:24.252][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.253][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.256][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.262][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:24.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:24.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.268][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:24.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:24.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.273][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:24.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:24.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.277][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.278][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:24.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:24.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:24.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:24.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.291][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:24.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:24.299][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:24.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:24.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:24.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.308][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:24.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:24.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.311][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.313][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:24.314][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.318][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:24.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:24.325][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:24.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.328][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:24.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:24.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.335][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:24.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:24.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.338][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:24.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:24.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.346][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:24.347][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:24.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.349][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:24.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.356][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:24.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:24.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.360][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.361][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:24.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:24.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:24.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:24.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:24.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:24.417][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-01-10 23:05:24.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:24.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:24.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:24.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:24.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:24.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:24.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:24.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:24.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:24.460][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-01-10 23:05:24.462][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:24.465][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-01-10 23:05:24.467][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:24.469][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:24.471][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:24.473][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:24.474][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:24.476][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:24.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:24.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:24.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:24.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:24.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:24.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:24.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:24.495][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-01-10 23:05:24.498][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:24.499][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:24.501][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-01-10 23:05:24.838][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-01-10 23:05:25.141][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:25.143][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-01-10 23:05:25.148][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-01-10 23:05:25.153][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-01-10 23:05:25.156][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:25.158][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:25.161][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:25.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:25.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:25.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:25.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:25.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:25.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:25.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:25.191][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.193][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.195][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.201][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:25.203][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:25.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.205][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.207][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:25.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:25.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:25.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:25.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.215][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:25.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:25.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:25.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:25.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:25.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:25.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.231][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:25.233][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:25.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.235][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:25.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:25.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.241][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:25.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:25.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.245][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.246][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:25.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.250][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.257][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:25.258][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:25.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:25.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:25.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.275][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:25.276][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:25.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.279][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:25.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.285][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:25.286][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:25.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.289][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.290][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:25.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:25.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.295][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:25.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:25.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.301][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:25.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:25.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:25.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:25.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:25.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:25.355][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-01-10 23:05:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:25.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:25.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:25.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:25.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:25.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:25.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:25.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:25.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:25.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:25.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:25.391][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-01-10 23:05:25.392][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:25.394][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-01-10 23:05:25.395][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:25.397][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:25.398][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:25.399][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:25.401][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:25.402][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:25.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:25.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:25.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:25.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:25.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:25.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:25.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:25.420][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-01-10 23:05:25.423][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:25.424][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:25.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-01-10 23:05:25.763][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-01-10 23:05:26.075][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:26.078][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-01-10 23:05:26.083][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-01-10 23:05:26.087][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-01-10 23:05:26.090][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:26.091][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:26.093][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:26.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:26.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:26.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:26.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:26.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:26.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:26.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:26.128][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.130][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.132][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.138][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:26.140][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:26.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.142][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:26.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.148][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:26.150][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:26.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.152][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:26.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:26.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.158][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:26.160][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:26.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.162][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:26.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:26.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.168][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:26.170][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:26.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.172][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:26.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:26.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.181][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:26.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:26.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.185][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:26.188][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.191][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:26.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.197][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:26.198][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:26.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.201][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:26.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.207][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:26.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:26.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:26.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:26.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.217][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:26.218][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:26.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.221][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.222][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:26.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:26.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.227][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:26.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:26.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.231][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:26.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:26.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:26.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:26.293][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-01-10 23:05:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:26.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:26.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:26.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:26.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:26.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:26.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:26.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:26.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:26.327][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-01-10 23:05:26.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:26.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-01-10 23:05:26.332][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:26.334][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:26.335][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:26.336][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:26.337][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:26.338][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:26.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:26.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:26.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:26.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:26.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:26.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:26.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:26.356][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-01-10 23:05:26.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:26.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:26.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-01-10 23:05:26.719][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-01-10 23:05:27.051][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:27.056][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-01-10 23:05:27.063][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-01-10 23:05:27.069][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-01-10 23:05:27.072][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:27.075][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:27.078][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:27.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:27.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:27.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:27.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:27.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:27.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:27.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:27.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.110][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.117][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:27.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:27.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.122][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:27.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:27.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.127][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:27.128][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:27.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.131][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:27.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.137][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:27.138][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:27.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.141][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.148][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:27.149][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:27.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.152][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:27.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:27.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.159][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:27.160][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:27.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.163][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.164][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:27.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.168][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.185][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:27.186][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:27.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.189][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.195][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:27.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:27.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.200][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.206][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:27.208][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:27.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:27.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:27.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.217][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:27.219][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:27.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.221][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:27.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:27.276][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-01-10 23:05:27.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:27.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:27.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:27.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:27.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:27.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:27.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:27.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:27.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:27.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:27.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:27.312][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-01-10 23:05:27.313][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:27.315][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-01-10 23:05:27.317][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:27.318][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:27.319][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:27.321][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:27.322][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:27.323][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:27.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:27.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:27.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:27.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:27.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:27.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:27.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:27.345][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-01-10 23:05:27.348][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:27.350][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:27.351][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-01-10 23:05:27.672][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-01-10 23:05:27.996][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:28.004][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-01-10 23:05:28.012][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-01-10 23:05:28.015][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-01-10 23:05:28.018][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:28.020][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:28.021][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:28.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:28.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:28.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:28.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:28.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:28.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:28.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:28.051][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.055][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.061][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:28.063][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.065][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.066][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:28.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:28.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.071][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:28.073][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:28.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.075][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:28.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:28.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.081][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:28.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:28.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.085][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:28.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:28.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.090][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.091][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:28.093][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:28.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.095][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:28.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.100][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.102][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:28.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.107][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:28.108][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:28.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.110][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:28.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:28.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:28.118][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:28.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:28.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:28.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.127][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:28.128][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:28.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.132][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:28.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:28.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:28.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:28.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.140][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:28.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:28.202][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-01-10 23:05:28.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:28.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:28.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:28.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:28.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:28.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:28.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:28.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:28.242][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-01-10 23:05:28.243][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:28.245][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-01-10 23:05:28.247][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:28.249][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:28.250][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:28.251][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:28.252][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:28.254][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:28.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:28.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:28.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:28.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:28.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:28.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:28.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:28.278][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-01-10 23:05:28.281][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:28.283][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:28.284][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-01-10 23:05:28.595][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-01-10 23:05:28.908][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:28.911][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-01-10 23:05:28.916][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-01-10 23:05:28.920][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-01-10 23:05:28.922][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:28.923][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:28.925][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:28.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:28.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:28.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:28.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:28.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:28.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:28.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:28.943][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.947][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:28.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:28.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.954][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:28.955][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:28.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.957][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.959][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:28.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:28.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:28.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:28.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.968][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.970][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:28.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:28.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:28.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.978][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.980][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:28.981][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:28.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.983][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.985][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:28.986][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:28.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.988][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.990][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:28.991][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:28.994][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:28.996][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:28.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:28.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.002][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:29.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:29.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.006][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:29.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:29.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:29.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:29.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.025][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:29.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:29.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.032][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:29.033][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:29.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.037][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:29.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:29.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:29.043][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:29.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.045][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:29.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:29.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:29.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:29.098][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-01-10 23:05:29.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:29.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:29.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:29.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:29.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:29.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:29.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:29.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:29.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:29.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:29.439][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-01-10 23:05:29.440][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:29.442][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.INFO [2025-01-10 23:05:29.444][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-01-10 23:05:29.446][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:29.448][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:29.449][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:29.450][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:29.452][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:29.453][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:29.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:29.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:29.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:29.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:29.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:29.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:29.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:29.486][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-01-10 23:05:29.491][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:29.492][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:29.494][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-01-10 23:05:29.857][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-01-10 23:05:30.179][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:30.184][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-01-10 23:05:30.194][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-01-10 23:05:30.198][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-01-10 23:05:30.200][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:30.202][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:30.204][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:30.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:30.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:30.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:30.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:30.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:30.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:30.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:30.235][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.237][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.240][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.249][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:30.251][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:30.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:30.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:30.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:30.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:30.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.264][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:30.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:30.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:30.273][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:30.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.277][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:30.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:30.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.287][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:30.289][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:30.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.293][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:30.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.303][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:30.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:30.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.307][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.308][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:30.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:30.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:30.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:30.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.325][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.332][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:30.334][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:30.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.336][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:30.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:30.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:30.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:30.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.347][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:30.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:30.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.354][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:30.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:30.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.357][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:30.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:30.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:30.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:30.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:30.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:30.440][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-01-10 23:05:30.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:30.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:30.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:30.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:30.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:30.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:30.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:30.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:30.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:30.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:30.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:30.564][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-01-10 23:05:30.565][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:30.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-01-10 23:05:30.570][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:30.571][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:30.573][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:30.574][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:30.575][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:30.577][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:30.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:30.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:30.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:30.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:30.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:30.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:30.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:30.601][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-01-10 23:05:30.606][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:30.608][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:30.610][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-01-10 23:05:31.054][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-01-10 23:05:31.387][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:31.390][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-01-10 23:05:31.394][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-01-10 23:05:31.398][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-01-10 23:05:31.400][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:31.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:31.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:31.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:31.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:31.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:31.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:31.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:31.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:31.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:31.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.425][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.431][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:31.433][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:31.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.435][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:31.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:31.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.441][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:31.443][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:31.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.445][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:31.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.451][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:31.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:31.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.455][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:31.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:31.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:31.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.465][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:31.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.472][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:31.473][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:31.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.475][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.477][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:31.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.481][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:31.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:31.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:31.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.499][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:31.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.505][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:31.507][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:31.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.509][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.515][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:31.517][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:31.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.519][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:31.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:31.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.525][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:31.527][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:31.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.529][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:31.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:31.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:31.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:31.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:31.584][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-01-10 23:05:31.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:31.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:31.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:31.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:31.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:32.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:32.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:32.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:32.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:32.299][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-01-10 23:05:32.301][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:32.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-01-10 23:05:32.307][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:32.309][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:32.311][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:32.313][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:32.315][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:32.316][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:32.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:32.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:32.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:32.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:32.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:32.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:32.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:32.340][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-01-10 23:05:32.344][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:32.345][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:32.346][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-01-10 23:05:32.693][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-01-10 23:05:33.004][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2025-01-10 23:05:33.015][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-01-10 23:05:33.020][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-01-10 23:05:33.027][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-01-10 23:05:33.032][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-01-10 23:05:33.035][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:33.036][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:33.038][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:33.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:33.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:33.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:33.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:33.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:33.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:33.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:33.058][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.061][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.068][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:33.070][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:33.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.072][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.073][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:33.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:33.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:33.079][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:33.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.082][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:33.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.088][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:33.089][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:33.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:33.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:33.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:33.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:33.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.102][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:33.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:33.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.109][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:33.111][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:33.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.114][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.116][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:33.118][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.122][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.124][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:33.134][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:33.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.138][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:33.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:33.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:33.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:33.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.154][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:33.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.164][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:33.167][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:33.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.170][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:33.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:33.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.181][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:33.183][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:33.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.186][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:33.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:33.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:33.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:33.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:33.285][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-01-10 23:05:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:33.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:33.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:33.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:33.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:33.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:33.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:33.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:33.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:33.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:33.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:33.337][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-01-10 23:05:33.339][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:33.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-01-10 23:05:33.342][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:33.344][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:33.345][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:33.346][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:33.348][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:33.349][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:33.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:33.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:33.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:33.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:33.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:33.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:33.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:33.378][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-01-10 23:05:33.384][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:33.386][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:33.388][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-01-10 23:05:33.738][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-01-10 23:05:34.058][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:34.062][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-01-10 23:05:34.069][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-01-10 23:05:34.075][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-01-10 23:05:34.078][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:34.081][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:34.084][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:34.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:34.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:34.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:34.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:34.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:34.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:34.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:34.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.117][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.128][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:34.129][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:34.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.132][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:34.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:34.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.139][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:34.140][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:34.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.143][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.145][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:34.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:34.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:34.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:34.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.154][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:34.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:34.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:34.162][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:34.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:34.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.190][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:34.192][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:34.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.199][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:34.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:34.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:34.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:34.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.214][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:34.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:34.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.220][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:34.222][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:34.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.224][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:34.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.231][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:34.232][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:34.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:34.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:34.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:34.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:34.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.249][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:34.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:34.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:34.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:34.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:34.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:34.306][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-01-10 23:05:34.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:34.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:34.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:34.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:34.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:34.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:34.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:34.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:34.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:34.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:34.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:34.346][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-01-10 23:05:34.347][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:34.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-01-10 23:05:34.351][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:34.353][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:34.354][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:34.356][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:34.357][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:34.358][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:34.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:34.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:34.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:34.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:34.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:34.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:34.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:34.393][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-01-10 23:05:34.396][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:34.397][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:34.399][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-01-10 23:05:34.769][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-01-10 23:05:35.094][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:35.097][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-01-10 23:05:35.102][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-01-10 23:05:35.106][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-01-10 23:05:35.109][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:35.110][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:35.112][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:35.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:35.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:35.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:35.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:35.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:35.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:35.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:35.131][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.132][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.141][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:35.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:35.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.145][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:35.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.151][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:35.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:35.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.155][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:35.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:35.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.161][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:35.163][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:35.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:35.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.173][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:35.174][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:35.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:35.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:35.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:35.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.189][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.190][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:35.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.196][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.202][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:35.203][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:35.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.205][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.212][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:35.213][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:35.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.215][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.222][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:35.223][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:35.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.232][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:35.233][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:35.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:35.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:35.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:35.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:35.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:35.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:35.303][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-01-10 23:05:35.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:35.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:35.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:35.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:35.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:35.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:35.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:35.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:35.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:35.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:35.334][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-01-10 23:05:35.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:35.337][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-01-10 23:05:35.339][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:35.340][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:35.342][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:35.343][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:35.345][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:35.346][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:35.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:35.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:35.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:35.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:35.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:35.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:35.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:35.366][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-01-10 23:05:35.369][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:35.371][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:35.372][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-01-10 23:05:35.747][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-01-10 23:05:36.073][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:36.076][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-01-10 23:05:36.082][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-01-10 23:05:36.086][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-01-10 23:05:36.090][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:36.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:36.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:36.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:36.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:36.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:36.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:36.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:36.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:36.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:36.129][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.130][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.132][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.139][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:36.140][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:36.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.143][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:36.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:36.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.150][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:36.151][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:36.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.153][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.165][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:36.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:36.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:36.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.180][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:36.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:36.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:36.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:36.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.195][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:36.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:36.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.204][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:36.205][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:36.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.209][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.211][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:36.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.217][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.219][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:36.229][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:36.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.239][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:36.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:36.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:36.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:36.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.250][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:36.251][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:36.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:36.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:36.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.260][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:36.262][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:36.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.264][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:36.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:36.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:36.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:36.327][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-01-10 23:05:36.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:36.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:36.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:36.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:36.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:36.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:36.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:36.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:36.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:36.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:36.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:36.370][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-01-10 23:05:36.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:36.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-01-10 23:05:36.378][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:36.381][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:36.383][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:36.385][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:36.387][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:36.389][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:36.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:36.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:36.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:36.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:36.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:36.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:36.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:36.440][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-01-10 23:05:36.443][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:36.444][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:36.446][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-01-10 23:05:36.839][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-01-10 23:05:37.148][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:37.152][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-01-10 23:05:37.159][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-01-10 23:05:37.164][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-01-10 23:05:37.168][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:37.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:37.173][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:37.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:37.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:37.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:37.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:37.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:37.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:37.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:37.199][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.201][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.210][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:37.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:37.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.213][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:37.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:37.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.220][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:37.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:37.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.223][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:37.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:37.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.230][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:37.231][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:37.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.234][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:37.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:37.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.240][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:37.242][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:37.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.246][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:37.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.256][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:37.258][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:37.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.262][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.264][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:37.266][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.270][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.272][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.280][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:37.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:37.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.285][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.296][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:37.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:37.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:37.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:37.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.312][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:37.314][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:37.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.318][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:37.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:37.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:37.341][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:37.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.344][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.345][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:37.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:37.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:37.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:37.400][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-01-10 23:05:37.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:37.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:37.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:37.595][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:37.600][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:37.601][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:37.603][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:38.085][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:38.597][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:38.601][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-01-10 23:05:38.608][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-01-10 23:05:38.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:38.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:38.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:38.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:38.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:38.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:38.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:38.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:38.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:38.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:39.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:39.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:39.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:39.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:39.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:39.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:39.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:39.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:39.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:39.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:39.527][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:39.531][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:39.533][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:39.535][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:39.852][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:40.168][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:40.171][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-01-10 23:05:40.178][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-01-10 23:05:40.185][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:40.189][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:40.191][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:40.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:40.519][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:40.868][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:40.872][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-01-10 23:05:40.880][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-01-10 23:05:40.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:40.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:40.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:40.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:40.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:40.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:40.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:40.905][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-01-10 23:05:40.908][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:40.910][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-01-10 23:05:40.912][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:40.914][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:40.915][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:40.916][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:40.918][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:40.919][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:40.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:40.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:40.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:40.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:40.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:40.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:40.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:40.972][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-01-10 23:05:40.976][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:40.978][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:40.980][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-01-10 23:05:41.340][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-01-10 23:05:41.661][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:41.664][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-01-10 23:05:41.670][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-01-10 23:05:41.674][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-01-10 23:05:41.677][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:41.679][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:41.680][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:41.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:41.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:41.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:41.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:41.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:41.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:41.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:41.702][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.705][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.712][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:41.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:41.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.716][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.718][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:41.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:41.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.723][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:41.725][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:41.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.727][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:41.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:41.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.735][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:41.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:41.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.739][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:41.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:41.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.746][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:41.747][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:41.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.750][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:41.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:41.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:41.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.767][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:41.769][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:41.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.771][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.772][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:41.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:41.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.777][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.791][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.798][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:41.799][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:41.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.802][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:41.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:41.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.808][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:41.810][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:41.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.812][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.814][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:41.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:41.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.818][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:41.820][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:41.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.822][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:41.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:41.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:41.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:41.881][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-01-10 23:05:41.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:41.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:41.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:41.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:41.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:41.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:41.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:41.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:41.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:41.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:41.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:41.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:41.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:41.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:41.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:41.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:41.955][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-01-10 23:05:41.957][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:41.959][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-01-10 23:05:41.960][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:41.962][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:41.963][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:41.964][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:41.966][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:41.967][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:41.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:41.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:41.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:41.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:41.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:41.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:41.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:41.994][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-01-10 23:05:41.997][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:41.998][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:42.000][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-01-10 23:05:42.560][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-01-10 23:05:42.879][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:42.882][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-01-10 23:05:42.887][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-01-10 23:05:42.890][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-01-10 23:05:42.893][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:42.895][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:42.897][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:42.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:42.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:42.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:42.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:42.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:42.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:42.913][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.TRACE[2025-01-10 23:05:42.916][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:42.917][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:42.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.919][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.926][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:42.927][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:42.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.929][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.931][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:42.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:42.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:42.937][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:42.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.939][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:42.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.946][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:42.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:42.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.950][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:42.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:42.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:42.958][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:42.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.961][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:42.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:42.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.973][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:42.975][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:42.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:42.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:42.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:42.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:42.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:42.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:42.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.994][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:42.995][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:42.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:42.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:42.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:43.006][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:43.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.008][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:43.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:43.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.015][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:43.016][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:43.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.018][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.020][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:43.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:43.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:43.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:43.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:43.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.083][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-01-10 23:05:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.397][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:43.402][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:43.404][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:43.406][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:43.409][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-10 23:05:43.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:43.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:43.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:43.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:43.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:43.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:43.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:43.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:43.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:43.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.208][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:44.212][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:44.214][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-10 23:05:44.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:44.219][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-10 23:05:44.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:44.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:44.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:44.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:44.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:44.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:44.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:44.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:44.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:44.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:44.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:44.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.015][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:45.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:45.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:45.034][biodb::testThat]
biodb.INFO [2025-01-10 23:05:45.035][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-01-10 23:05:45.036][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:45.037][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:45.041][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-10 23:05:45.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-10 23:05:45.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:45.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:45.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:45.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:45.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:45.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:45.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:45.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:45.094][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:45.097][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:45.099][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:45.101][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:45.413][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:45.748][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:45.753][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-01-10 23:05:45.761][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-01-10 23:05:45.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:45.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:45.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:45.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:45.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:45.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:45.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:45.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:45.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:45.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:45.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:45.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:45.817][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:45.819][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:45.821][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:46.141][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:46.455][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:46.459][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-01-10 23:05:46.467][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-01-10 23:05:46.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:46.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:46.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:46.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:46.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:46.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:46.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:46.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:46.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:46.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:46.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:46.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:46.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:46.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:46.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:46.676][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:46.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:46.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:46.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:46.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:46.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:46.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:46.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:46.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.706][private$selectFields]
biodb.TRACE[2025-01-10 23:05:46.707][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:46.708][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:46.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.714][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.722][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.727][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.728][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:46.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.755][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-10 23:05:46.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:46.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:46.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:46.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:46.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:46.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:46.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.796][private$selectFields]
biodb.TRACE[2025-01-10 23:05:46.797][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:46.798][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:46.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.804][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.809][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.820][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.826][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.827][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.845][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:46.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:46.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:46.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:46.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:46.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:46.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:46.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.872][private$selectFields]
biodb.TRACE[2025-01-10 23:05:46.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:46.875][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:46.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.881][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.883][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.888][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.890][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:46.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.895][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.897][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.914][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-10 23:05:46.915][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:46.916][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:46.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:46.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:47.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:47.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:47.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:47.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:47.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:47.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:47.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:47.027][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:47.032][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:47.033][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:47.035][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:47.349][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:47.685][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:47.689][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-01-10 23:05:47.697][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-01-10 23:05:47.704][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:47.710][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:47.713][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:47.716][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:48.045][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:48.347][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:48.350][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-01-10 23:05:48.355][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-01-10 23:05:48.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:48.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:48.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:49.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:49.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:49.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:49.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:49.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:49.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:49.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:49.664][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:49.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:49.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:49.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.724][private$selectFields]
biodb.TRACE[2025-01-10 23:05:49.725][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:49.726][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:49.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.733][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.738][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.741][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.746][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.748][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:49.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.765][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-10 23:05:49.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:49.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:49.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.831][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.832][private$selectFields]
biodb.TRACE[2025-01-10 23:05:49.834][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:49.835][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:49.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.842][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.847][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.860][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.866][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.868][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:49.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:49.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:49.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:49.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:49.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:49.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:49.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:49.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:49.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.918][private$selectFields]
biodb.TRACE[2025-01-10 23:05:49.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:49.921][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:49.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.927][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.934][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.938][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:49.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.942][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.948][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:49.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:49.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:49.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:49.974][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-10 23:05:49.976][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:49.978][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:49.996][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:49.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:50.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:50.013][biodb::testThat]
biodb.INFO [2025-01-10 23:05:50.015][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-01-10 23:05:50.016][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:50.017][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:50.022][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-10 23:05:50.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-10 23:05:50.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:50.078][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:50.082][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:50.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-10 23:05:50.085][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:50.088][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-10 23:05:50.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.120][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:50.124][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:50.125][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-10 23:05:50.127][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:50.130][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-10 23:05:50.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:50.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.209][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:50.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.256][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.258][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.260][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.263][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.271][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.274][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.281][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.283][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.307][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-10 23:05:50.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.348][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.349][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.351][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.360][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.371][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.378][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.380][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:50.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.447][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.449][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.451][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.453][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.463][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.472][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.476][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.478][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.484][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.486][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.511][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-10 23:05:50.513][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:50.515][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:50.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:50.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:50.594][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:50.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-10 23:05:50.598][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:50.600][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-10 23:05:50.605][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:50.609][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:50.611][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-10 23:05:50.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:50.615][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-10 23:05:50.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:50.731][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:50.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.774][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.787][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.795][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.797][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.798][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.808][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-10 23:05:50.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.867][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.869][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.875][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.880][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.882][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.887][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.888][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.905][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:50.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:50.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:50.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:50.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:50.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:50.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:50.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:50.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.935][private$selectFields]
biodb.TRACE[2025-01-10 23:05:50.937][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:50.938][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:50.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.942][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.944][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.949][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.951][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:50.953][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.954][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.957][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:50.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:50.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:50.974][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-10 23:05:50.975][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:50.977][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:50.989][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:50.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:50.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:50.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:51.001][biodb::testThat]
biodb.INFO [2025-01-10 23:05:51.002][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-01-10 23:05:51.004][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:51.005][biodb::testThat]
biodb.TRACE[2025-01-10 23:05:51.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-10 23:05:51.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-10 23:05:51.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:51.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:51.059][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:51.062][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-10 23:05:51.065][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:51.069][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-10 23:05:51.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.118][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:51.122][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:51.124][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-10 23:05:51.126][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:51.128][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-10 23:05:51.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.217][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:51.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.253][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.254][private$selectFields]
biodb.TRACE[2025-01-10 23:05:51.256][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:51.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:51.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.268][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.272][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.277][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.279][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.281][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.289][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:51.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.314][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-10 23:05:51.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.357][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.359][private$selectFields]
biodb.TRACE[2025-01-10 23:05:51.361][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:51.363][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:51.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.373][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.381][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.392][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.394][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:51.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.419][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:51.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.480][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.482][private$selectFields]
biodb.TRACE[2025-01-10 23:05:51.484][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:51.486][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:51.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.495][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.503][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.505][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.507][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.515][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.517][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.543][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-10 23:05:51.545][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:51.546][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:51.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:51.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:51.671][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:51.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-10 23:05:51.676][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:51.680][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-10 23:05:51.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:51.692][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:05:51.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-10 23:05:51.698][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:05:51.703][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-10 23:05:51.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:51.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:51.857][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-10 23:05:51.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.899][private$selectFields]
biodb.TRACE[2025-01-10 23:05:51.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:51.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:51.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.918][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.920][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.924][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.927][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.933][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.934][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:51.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.952][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-10 23:05:51.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:51.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:51.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:51.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:51.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:51.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:51.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:51.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:51.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:51.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:51.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:51.996][private$selectFields]
biodb.TRACE[2025-01-10 23:05:51.997][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:51.998][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:52.000][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.004][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.010][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.011][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.016][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.017][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:52.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-10 23:05:52.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:52.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:52.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:52.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:52.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:52.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:52.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:52.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.064][private$selectFields]
biodb.TRACE[2025-01-10 23:05:52.066][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-10 23:05:52.067][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-10 23:05:52.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.073][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.078][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.080][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-10 23:05:52.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.085][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.086][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-10 23:05:52.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:52.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:52.103][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-10 23:05:52.104][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-10 23:05:52.106][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-10 23:05:52.191][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:52.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-10 23:05:52.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:52.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:52.206][biodb::testThat]
biodb.INFO [2025-01-10 23:05:52.209][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-10 23:05:52.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:52.213][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:52.217][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-10 23:05:52.219][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:05:52.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-10 23:05:52.225][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:05:52.227][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:52.229][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:52.232][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:52.234][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:52.236][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:52.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:52.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:52.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:52.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:52.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:52.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:52.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:52.267][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-01-10 23:05:52.272][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:52.274][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:52.276][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-01-10 23:05:52.745][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-01-10 23:05:53.672][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:53.676][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-01-10 23:05:53.681][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-01-10 23:05:53.685][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-01-10 23:05:53.688][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:53.689][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:05:53.691][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:53.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:53.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:53.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:53.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:53.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:53.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:53.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:53.715][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.721][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.731][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:53.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:53.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.737][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.739][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:53.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:53.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.745][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:53.749][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:53.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.753][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:53.757][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:53.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.763][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:53.765][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:53.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.771][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:53.773][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:53.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.776][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:53.780][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:53.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:53.788][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:53.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.792][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.794][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:53.796][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:53.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.800][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:53.805][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:53.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.808][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:53.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:53.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:53.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:53.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:53.862][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-01-10 23:05:53.863][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-10 23:05:54.088][biodb::testThat]
biodb.INFO [2025-01-10 23:05:54.089][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-10 23:05:54.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:54.092][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:54.284][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-01-10 23:05:54.286][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-01-10 23:05:54.288][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-01-10 23:05:54.292][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-01-10 23:05:54.304][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-01-10 23:05:54.309][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:05:54.312][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:05:54.314][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:54.317][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:05:54.319][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:05:54.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:54.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:54.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:54.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:54.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:54.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:54.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:54.352][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-01-10 23:05:54.358][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:54.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:54.363][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-01-10 23:05:54.688][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-01-10 23:05:55.034][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:55.037][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-01-10 23:05:55.042][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-01-10 23:05:55.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:55.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:55.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:55.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:55.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:55.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:55.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:55.067][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-01-10 23:05:55.071][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:55.072][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:55.074][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-01-10 23:05:55.440][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-01-10 23:05:55.764][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:55.769][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-01-10 23:05:55.776][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-01-10 23:05:55.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:55.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:55.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:55.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:55.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:55.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:55.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:55.811][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-01-10 23:05:55.816][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:55.818][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:55.821][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-01-10 23:05:56.172][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-01-10 23:05:56.485][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:56.489][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-01-10 23:05:56.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-01-10 23:05:56.502][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-01-10 23:05:56.510][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:05:56.512][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-01-10 23:05:56.515][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-01-10 23:05:56.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:56.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:56.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:56.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:56.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:56.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:56.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:56.539][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.543][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.551][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:56.552][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:56.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.554][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.556][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:56.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:56.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.560][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.562][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:56.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:56.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.566][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.568][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.569][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.572][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.573][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.575][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.577][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.579][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:56.580][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:56.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.583][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.588][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.590][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:56.592][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:56.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.595][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.597][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:56.599][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:56.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.601][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.603][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:56.604][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:56.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.606][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:56.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:56.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:56.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:56.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:56.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:56.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:56.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:56.667][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.671][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.678][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:56.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:56.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.682][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:56.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:56.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:56.692][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:56.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.694][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:56.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:56.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.702][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:56.703][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:56.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.706][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:56.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:56.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.713][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.714][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.717][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.725][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.729][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.735][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:56.737][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:56.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.739][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:56.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.747][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.748][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.750][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.757][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:56.759][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:56.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:56.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:56.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.767][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:56.769][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:56.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.771][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.773][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:56.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:56.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:56.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:56.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.781][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:56.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:56.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:56.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:05:56.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:56.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:56.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:56.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:56.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:56.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:05:56.840][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.844][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.851][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:56.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:56.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.865][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.867][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:05:56.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:05:56.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.872][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:56.873][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:56.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.875][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:05:56.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:05:56.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.882][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:56.883][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:56.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.885][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:05:56.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:05:56.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.893][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.896][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:05:56.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.904][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.906][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.908][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:05:56.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.913][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:56.914][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:56.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.916][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:05:56.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:05:56.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.926][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:56.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.933][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:56.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:56.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:56.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:56.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.943][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:56.944][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:56.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.947][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:05:56.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:05:56.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.953][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:56.955][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:56.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.957][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.958][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:05:56.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:05:56.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:05:56.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:56.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:56.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:56.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:57.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:05:57.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:05:57.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:57.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:05:57.087][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-01-10 23:05:57.089][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-10 23:05:57.091][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-01-10 23:05:57.131][biodb::testThat]
biodb.INFO [2025-01-10 23:05:57.133][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-10 23:05:57.135][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:57.137][biodb::testThat]
biodb.INFO [2025-01-10 23:05:57.332][biodb::testThat]
biodb.INFO [2025-01-10 23:05:57.334][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-10 23:05:57.336][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:57.338][biodb::testThat]
biodb.INFO [2025-01-10 23:05:57.361][biodb::testThat]
biodb.INFO [2025-01-10 23:05:57.363][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-10 23:05:57.365][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:57.366][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:57.369][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:05:57.373][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:57.374][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:57.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:05:57.930][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:05:58.361][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:05:58.364][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-01-10 23:05:58.370][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-01-10 23:05:58.390][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:05:58.392][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:05:58.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:58.395][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:05:58.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:58.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:05:58.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:05:58.400][ef$get] fields variable is a list.
biodb.INFO [2025-01-10 23:05:58.402][biodb::testThat]
biodb.INFO [2025-01-10 23:05:58.404][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-01-10 23:05:58.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:58.407][biodb::testThat]
biodb.ERROR[2025-01-10 23:05:58.427][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-01-10 23:05:58.445][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-01-10 23:05:58.463][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-10 23:05:58.465][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-10 23:05:58.467][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-10 23:05:58.468][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-10 23:05:58.469][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:58.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:58.472][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.475][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-10 23:05:58.487][biodb::testContext]
biodb.INFO [2025-01-10 23:05:58.489][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:05:58.490][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-01-10 23:05:58.492][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:05:58.493][biodb::testContext]
biodb.INFO [2025-01-10 23:05:58.496][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:05:58.499][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-10 23:05:58.504][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:58.506][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-10 23:05:58.507][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.514][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-10 23:05:58.516][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.519][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[2025-01-10 23:05:58.521][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-10 23:05:58.522][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.527][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-10 23:05:58.528][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-10 23:05:58.537][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-10 23:05:58.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.546][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-10 23:05:58.548][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-10 23:05:58.550][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.558][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-10 23:05:58.560][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-10 23:05:58.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.567][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-10 23:05:58.569][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-10 23:05:58.571][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-10 23:05:58.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.579][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-10 23:05:58.581][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.588][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-10 23:05:58.590][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-10 23:05:58.592][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-10 23:05:58.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.599][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:05:58.601][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-10 23:05:58.603][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-10 23:05:58.605][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-10 23:05:58.607][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-10 23:05:58.609][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-10 23:05:58.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.617][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-10 23:05:58.619][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-10 23:05:58.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.626][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-10 23:05:58.628][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-10 23:05:58.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.635][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-10 23:05:58.637][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-10 23:05:58.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.644][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-10 23:05:58.646][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-10 23:05:58.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.651][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.DEBUG[2025-01-10 23:05:58.653][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-10 23:05:58.655][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-10 23:05:58.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.661][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:05:58.663][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-10 23:05:58.669][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-10 23:05:58.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.674][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[2025-01-10 23:05:58.676][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-10 23:05:58.678][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-10 23:05:58.680][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-10 23:05:58.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.688][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-10 23:05:58.691][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.693][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-10 23:05:58.695][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.696][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:58.698][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.700][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.702][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.704][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.706][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:05:58.708][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:58.710][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.712][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-10 23:05:58.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:58.716][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.718][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.719][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:58.719][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:58.719][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:58.719][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:05:58.719][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:05:58.721][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:58.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.727][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:58.729][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.730][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.732][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.734][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.736][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:58.737][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:58.739][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.741][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.743][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-10 23:05:58.746][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.748][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:05:58.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.752][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:58.754][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.756][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.758][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.760][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.761][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:05:58.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:58.765][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.767][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-10 23:05:58.769][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:58.771][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.773][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.775][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:58.775][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:58.775][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:58.775][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:05:58.775][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:05:58.777][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:58.779][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.780][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.782][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:58.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.788][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.790][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.791][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:58.793][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:58.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.797][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.799][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-10 23:05:58.803][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.805][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-10 23:05:58.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.808][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:58.809][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.812][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.813][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.814][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:05:58.815][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:58.817][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.818][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-10 23:05:58.819][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:58.820][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.822][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.823][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.824][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:58.825][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.827][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:58.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.831][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.832][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.833][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:58.835][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:58.836][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.837][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.838][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-10 23:05:58.840][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.842][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:05:58.843][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:58.845][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.846][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.848][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.849][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.850][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:05:58.851][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:58.852][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.854][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-10 23:05:58.855][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:58.856][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.857][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:58.859][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.860][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:05:58.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:58.864][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:58.865][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:58.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:58.868][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.869][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:58.870][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:58.871][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:58.873][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:05:58.874][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:58.875][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.895][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[2025-01-10 23:05:58.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.965][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[2025-01-10 23:05:58.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:58.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:58.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:58.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:58.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:58.997][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-10 23:05:59.000][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-10 23:05:59.002][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-10 23:05:59.005][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-10 23:05:59.008][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:05:59.011][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-10 23:05:59.012][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-10 23:05:59.014][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-10 23:05:59.016][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-10 23:05:59.018][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-10 23:05:59.020][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:05:59.022][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-10 23:05:59.024][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-10 23:05:59.026][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-10 23:05:59.027][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-10 23:05:59.029][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-10 23:05:59.032][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-10 23:05:59.034][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-10 23:05:59.037][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:05:59.039][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-10 23:05:59.042][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-10 23:05:59.045][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-10 23:05:59.047][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-10 23:05:59.050][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-10 23:05:59.052][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-10 23:05:59.055][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-10 23:05:59.057][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-10 23:05:59.060][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-10 23:05:59.063][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-10 23:05:59.065][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-10 23:05:59.068][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-10 23:05:59.070][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-10 23:05:59.073][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-10 23:05:59.075][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-10 23:05:59.087][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-10 23:05:59.090][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-10 23:05:59.093][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-10 23:05:59.095][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-10 23:05:59.098][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-10 23:05:59.101][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-10 23:05:59.104][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-10 23:05:59.107][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-10 23:05:59.109][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-10 23:05:59.112][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-10 23:05:59.115][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-10 23:05:59.117][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-10 23:05:59.120][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-10 23:05:59.123][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-10 23:05:59.125][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-10 23:05:59.128][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-10 23:05:59.130][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-10 23:05:59.133][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-10 23:05:59.135][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-10 23:05:59.138][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-10 23:05:59.140][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-10 23:05:59.143][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-10 23:05:59.146][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-10 23:05:59.148][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-10 23:05:59.151][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-10 23:05:59.153][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-10 23:05:59.156][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-10 23:05:59.159][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-10 23:05:59.161][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-10 23:05:59.164][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-10 23:05:59.166][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-10 23:05:59.169][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-10 23:05:59.171][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:05:59.174][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:05:59.177][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-10 23:05:59.180][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-10 23:05:59.183][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-10 23:05:59.186][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-10 23:05:59.189][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-10 23:05:59.191][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-10 23:05:59.194][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-10 23:05:59.197][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-10 23:05:59.200][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-10 23:05:59.202][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-10 23:05:59.205][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-10 23:05:59.208][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-10 23:05:59.211][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-10 23:05:59.214][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-10 23:05:59.217][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-10 23:05:59.220][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-10 23:05:59.224][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:05:59.226][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:05:59.228][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.231][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.295][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[2025-01-10 23:05:59.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:05:59.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:05:59.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:05:59.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:05:59.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:05:59.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:05:59.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:05:59.440][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-10 23:05:59.443][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-10 23:05:59.446][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:59.448][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-10 23:05:59.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:59.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:05:59.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:59.456][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:05:59.458][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:59.460][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-10 23:05:59.462][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-10 23:05:59.465][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:05:59.467][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:59.469][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-10 23:05:59.471][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-10 23:05:59.473][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-10 23:05:59.475][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-10 23:05:59.477][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:05:59.477][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:05:59.477][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:05:59.479][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-10 23:05:59.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:59.483][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:59.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:05:59.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:05:59.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:05:59.491][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:05:59.492][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:05:59.492][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-10 23:05:59.494][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:05:59.496][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:05:59.498][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-10 23:05:59.500][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-10 23:05:59.500][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-10 23:05:59.503][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:05:59.505][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:05:59.508][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-10 23:05:59.511][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:05:59.514][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:05:59.517][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:05:59.523][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-10 23:05:59.525][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-10 23:05:59.527][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-10 23:05:59.530][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-10 23:05:59.533][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:05:59.535][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:05:59.537][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-10 23:05:59.539][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-10 23:05:59.543][biodb::testThat]
biodb.INFO [2025-01-10 23:05:59.544][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-01-10 23:05:59.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:05:59.548][biodb::testThat]
biodb.DEBUG[2025-01-10 23:05:59.555][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-10 23:05:59.563][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:05:59.565][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:05:59.567][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-01-10 23:05:59.875][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-01-10 23:06:00.336][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:00.340][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-01-10 23:06:00.348][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-01-10 23:06:00.357][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:00.364][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:00.366][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:00.369][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:00.697][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:01.023][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:01.027][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-01-10 23:06:01.034][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-01-10 23:06:01.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.056][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.060][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:01.062][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:01.065][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:01.390][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:01.707][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:01.711][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-01-10 23:06:01.717][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-01-10 23:06:01.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.744][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[2025-01-10 23:06:01.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.803][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:01.812][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-10 23:06:01.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:01.817][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-10 23:06:01.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.839][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.845][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:01.848][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-10 23:06:01.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:01.856][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-10 23:06:01.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.906][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.912][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:01.915][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-10 23:06:01.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:01.922][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-10 23:06:01.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.945][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:01.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-10 23:06:01.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:01.957][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-10 23:06:01.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:01.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:01.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:01.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:01.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:01.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:01.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:01.987][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:01.994][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:01.996][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:02.000][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:02.322][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:02.644][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:02.647][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-01-10 23:06:02.653][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-01-10 23:06:02.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:02.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:02.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:03.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:03.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:03.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:03.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-10 23:06:03.839][biodb::testThat]
biodb.INFO [2025-01-10 23:06:03.841][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-01-10 23:06:03.844][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:06:03.846][biodb::testThat]
biodb.DEBUG[2025-01-10 23:06:03.852][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:03.859][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:03.862][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:03.866][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:04.281][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:04.590][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:04.593][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-01-10 23:06:04.599][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-01-10 23:06:04.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:04.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:04.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:04.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:04.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:04.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:04.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:04.619][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:04.623][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:04.624][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:04.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:04.947][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:05.270][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:05.275][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-01-10 23:06:05.282][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-01-10 23:06:05.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:05.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:05.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:05.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-10 23:06:05.321][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-10 23:06:05.324][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-10 23:06:05.326][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-10 23:06:05.328][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-10 23:06:05.330][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:05.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:05.333][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.337][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.339][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.INFO [2025-01-10 23:06:05.347][biodb::testContext]
biodb.INFO [2025-01-10 23:06:05.349][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:06:05.351][biodb::testContext] Test context - Test web services
biodb.INFO [2025-01-10 23:06:05.353][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:06:05.354][biodb::testContext]
biodb.INFO [2025-01-10 23:06:05.359][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:06:05.362][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-10 23:06:05.371][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:05.374][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-10 23:06:05.376][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.383][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-10 23:06:05.385][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.392][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-10 23:06:05.394][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.401][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-10 23:06:05.404][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-10 23:06:05.406][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-10 23:06:05.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.413][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-10 23:06:05.415][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-10 23:06:05.417][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.425][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-10 23:06:05.427][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-10 23:06:05.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.434][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-10 23:06:05.436][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-10 23:06:05.438][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-10 23:06:05.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.445][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-10 23:06:05.447][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.452][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[2025-01-10 23:06:05.454][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-10 23:06:05.456][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-10 23:06:05.458][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-10 23:06:05.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.466][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:06:05.467][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-10 23:06:05.469][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-10 23:06:05.471][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-10 23:06:05.473][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-10 23:06:05.475][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-10 23:06:05.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.482][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-10 23:06:05.484][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-10 23:06:05.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.492][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-10 23:06:05.494][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-10 23:06:05.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.501][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-10 23:06:05.503][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-10 23:06:05.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.510][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-10 23:06:05.512][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-10 23:06:05.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.519][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-10 23:06:05.521][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-10 23:06:05.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.528][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:06:05.530][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-10 23:06:05.536][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-10 23:06:05.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.543][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-10 23:06:05.546][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-10 23:06:05.548][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-10 23:06:05.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.555][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-10 23:06:05.558][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.575][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-10 23:06:05.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.579][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:05.581][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.583][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.585][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.587][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.589][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:06:05.591][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:05.593][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.594][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-10 23:06:05.595][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:05.596][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.598][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.599][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:05.599][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:05.599][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:05.599][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:06:05.599][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:06:05.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:05.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.603][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:05.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.607][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.608][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.609][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:05.610][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:05.612][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.614][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.616][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-10 23:06:05.618][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.620][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:06:05.621][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:05.624][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.625][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.627][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.628][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.629][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:06:05.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:05.632][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.634][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-10 23:06:05.636][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:05.637][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.639][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.640][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:05.640][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:05.640][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:05.640][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:06:05.640][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:06:05.641][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:05.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:05.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.648][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.650][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.652][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.654][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:05.655][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:05.657][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.659][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.661][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-10 23:06:05.664][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.666][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-10 23:06:05.668][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.670][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:05.672][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.674][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.676][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.678][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.679][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:06:05.681][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:05.683][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.685][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-10 23:06:05.687][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:05.689][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.691][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.693][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:05.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.699][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.700][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:05.702][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.703][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.704][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.705][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:05.707][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:05.709][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.710][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.711][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-10 23:06:05.713][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.714][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:06:05.715][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.717][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:05.718][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.719][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.720][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.722][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.723][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:06:05.724][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:05.725][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.727][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-10 23:06:05.728][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:05.729][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.730][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:05.732][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.733][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:05.734][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.735][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.736][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:05.738][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:05.739][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:05.740][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:05.741][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.742][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:05.744][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:05.745][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:05.746][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:05.748][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:05.749][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.761][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[2025-01-10 23:06:05.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.835][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[2025-01-10 23:06:05.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:05.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:05.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:05.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:05.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:05.847][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-10 23:06:05.849][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-10 23:06:05.851][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-10 23:06:05.852][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-10 23:06:05.854][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:06:05.855][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-10 23:06:05.857][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-10 23:06:05.859][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-10 23:06:05.860][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-10 23:06:05.862][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-10 23:06:05.863][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:06:05.865][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-10 23:06:05.867][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-10 23:06:05.868][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-10 23:06:05.870][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-10 23:06:05.871][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-10 23:06:05.873][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-10 23:06:05.875][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-10 23:06:05.877][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:06:05.878][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-10 23:06:05.880][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-10 23:06:05.882][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-10 23:06:05.883][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-10 23:06:05.885][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-10 23:06:05.886][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-10 23:06:05.888][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-10 23:06:05.890][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-10 23:06:05.891][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-10 23:06:05.893][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-10 23:06:05.894][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-10 23:06:05.896][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-10 23:06:05.898][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-10 23:06:05.899][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-10 23:06:05.901][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-10 23:06:05.903][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-10 23:06:05.904][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-10 23:06:05.906][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-10 23:06:05.908][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-10 23:06:05.909][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-10 23:06:05.911][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-10 23:06:05.913][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-10 23:06:05.915][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-10 23:06:05.916][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-10 23:06:05.918][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-10 23:06:05.920][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-10 23:06:05.921][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-10 23:06:05.923][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-10 23:06:05.925][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-10 23:06:05.927][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-10 23:06:05.930][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-10 23:06:05.932][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-10 23:06:05.935][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-10 23:06:05.937][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-10 23:06:05.940][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-10 23:06:05.943][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-10 23:06:05.945][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-10 23:06:05.948][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-10 23:06:05.951][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-10 23:06:05.954][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-10 23:06:05.956][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-10 23:06:05.959][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-10 23:06:05.962][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-10 23:06:05.965][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-10 23:06:05.968][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-10 23:06:05.971][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-10 23:06:05.973][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-10 23:06:05.976][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:06:05.979][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:06:05.982][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-10 23:06:05.984][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-10 23:06:05.987][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-10 23:06:05.990][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-10 23:06:05.992][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-10 23:06:05.995][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-10 23:06:05.997][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-10 23:06:06.000][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-10 23:06:06.003][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-10 23:06:06.005][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-10 23:06:06.008][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-10 23:06:06.011][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-10 23:06:06.013][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-10 23:06:06.016][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-10 23:06:06.018][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-10 23:06:06.021][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-10 23:06:06.025][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:06:06.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:06.039][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.043][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.136][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[2025-01-10 23:06:06.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.144][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[2025-01-10 23:06:06.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:06.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:06.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:06.192][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-10 23:06:06.194][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-10 23:06:06.196][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:06.197][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-10 23:06:06.198][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:06.199][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:06.201][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:06.202][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:06.203][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:06.204][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-10 23:06:06.205][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-10 23:06:06.207][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:06.208][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:06.209][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-10 23:06:06.210][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-10 23:06:06.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-10 23:06:06.213][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:06.214][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:06.214][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:06.214][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:06.216][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-10 23:06:06.218][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:06.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:06.221][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:06.223][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:06.225][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:06.227][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:06.229][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:06:06.229][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-10 23:06:06.231][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:06.232][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:06.234][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:06.235][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-10 23:06:06.235][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-10 23:06:06.236][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:06:06.238][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:06:06.240][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-10 23:06:06.241][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:06:06.243][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:06:06.245][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:06:06.248][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-10 23:06:06.250][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-10 23:06:06.251][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-10 23:06:06.253][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-10 23:06:06.254][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:06:06.255][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:06:06.257][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-10 23:06:06.258][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-10 23:06:06.260][biodb::testThat]
biodb.INFO [2025-01-10 23:06:06.261][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-01-10 23:06:06.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:06:06.264][biodb::testThat]
biodb.DEBUG[2025-01-10 23:06:06.267][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-10 23:06:06.272][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:06.274][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-10 23:06:06.276][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:06.279][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-10 23:06:06.284][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:06.289][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:06.291][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:06.295][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-10 23:06:06.615][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-10 23:06:06.951][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:06.955][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-01-10 23:06:06.963][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-01-10 23:06:06.981][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-10 23:06:06.984][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-10 23:06:06.987][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-10 23:06:06.989][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-10 23:06:06.991][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:06.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:06.995][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:06.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:06.998][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-10 23:06:07.009][biodb::testContext]
biodb.INFO [2025-01-10 23:06:07.011][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:06:07.013][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-01-10 23:06:07.015][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-10 23:06:07.018][biodb::testContext]
biodb.INFO [2025-01-10 23:06:07.022][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:06:07.026][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-10 23:06:07.033][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:07.036][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-10 23:06:07.038][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.046][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-10 23:06:07.048][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.056][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-10 23:06:07.058][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.064][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.DEBUG[2025-01-10 23:06:07.066][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-10 23:06:07.068][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-10 23:06:07.070][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-10 23:06:07.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.077][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-10 23:06:07.080][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-10 23:06:07.081][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.088][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-10 23:06:07.091][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-10 23:06:07.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.098][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-10 23:06:07.100][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-10 23:06:07.102][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-10 23:06:07.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.109][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-10 23:06:07.111][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.119][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-10 23:06:07.121][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-10 23:06:07.123][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-10 23:06:07.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.130][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:06:07.133][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-10 23:06:07.135][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-10 23:06:07.137][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-10 23:06:07.139][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-10 23:06:07.141][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-10 23:06:07.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.148][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-10 23:06:07.150][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-10 23:06:07.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.157][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-10 23:06:07.159][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-10 23:06:07.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.167][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-10 23:06:07.169][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-10 23:06:07.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.176][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-10 23:06:07.178][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-10 23:06:07.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.185][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-10 23:06:07.187][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-10 23:06:07.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.195][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-10 23:06:07.197][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-10 23:06:07.203][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-10 23:06:07.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.210][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-10 23:06:07.212][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-10 23:06:07.215][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-10 23:06:07.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.223][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-10 23:06:07.226][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.228][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-10 23:06:07.230][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:07.245][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.247][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.248][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.250][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.251][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:06:07.252][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:07.254][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.255][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-10 23:06:07.256][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:07.258][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.259][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.260][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:07.260][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:07.260][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:07.260][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:06:07.260][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:06:07.261][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:07.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:07.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.269][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.270][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.271][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:07.273][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:07.274][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.275][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.276][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-10 23:06:07.279][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.280][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:06:07.281][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:07.284][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.285][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.286][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.288][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.289][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:06:07.290][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:07.291][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.293][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-10 23:06:07.294][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:07.296][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.297][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.298][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:07.298][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:07.298][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:07.298][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-10 23:06:07.298][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-10 23:06:07.299][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:07.301][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.304][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:07.305][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.306][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.308][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.310][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.311][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:07.312][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:07.313][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.315][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.317][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-10 23:06:07.319][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.321][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-10 23:06:07.323][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.325][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:07.326][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.327][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.329][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.331][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.333][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-10 23:06:07.334][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:07.336][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.337][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-10 23:06:07.338][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:07.339][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.341][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.342][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.343][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:07.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:07.348][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.349][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.351][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.352][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.353][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:07.354][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:07.355][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.357][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.358][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-10 23:06:07.360][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.362][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-10 23:06:07.363][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.364][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:07.366][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.367][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.368][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.370][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.371][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-10 23:06:07.372][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:07.373][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.375][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-10 23:06:07.376][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:07.377][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.378][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.380][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.381][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-10 23:06:07.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.384][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.385][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:07.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.391][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.393][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:07.394][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:07.395][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.397][self$setPropertyValue]
biodb.DEBUG[2025-01-10 23:06:07.399][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:07.400][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.407][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.DEBUG[2025-01-10 23:06:07.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.436][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[2025-01-10 23:06:07.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.442][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[2025-01-10 23:06:07.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.448][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[2025-01-10 23:06:07.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.454][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[2025-01-10 23:06:07.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.478][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[2025-01-10 23:06:07.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.502][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[2025-01-10 23:06:07.504][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-10 23:06:07.506][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-10 23:06:07.508][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-10 23:06:07.509][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-10 23:06:07.512][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:06:07.514][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-10 23:06:07.517][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-10 23:06:07.520][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-10 23:06:07.522][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-10 23:06:07.525][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-10 23:06:07.528][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:06:07.530][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-10 23:06:07.533][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-10 23:06:07.536][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-10 23:06:07.538][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-10 23:06:07.541][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-10 23:06:07.544][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-10 23:06:07.546][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-10 23:06:07.549][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:06:07.551][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-10 23:06:07.554][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-10 23:06:07.557][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-10 23:06:07.559][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-10 23:06:07.562][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-10 23:06:07.565][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-10 23:06:07.567][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-10 23:06:07.570][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-10 23:06:07.572][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-10 23:06:07.573][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-10 23:06:07.575][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-10 23:06:07.577][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-10 23:06:07.579][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-10 23:06:07.581][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-10 23:06:07.583][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-10 23:06:07.586][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-10 23:06:07.588][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-10 23:06:07.591][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-10 23:06:07.593][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-10 23:06:07.596][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-10 23:06:07.599][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-10 23:06:07.601][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-10 23:06:07.604][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-10 23:06:07.607][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-10 23:06:07.609][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-10 23:06:07.612][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-10 23:06:07.615][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-10 23:06:07.617][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-10 23:06:07.620][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-10 23:06:07.623][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-10 23:06:07.625][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-10 23:06:07.628][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-10 23:06:07.631][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-10 23:06:07.633][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-10 23:06:07.636][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-10 23:06:07.638][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-10 23:06:07.641][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-10 23:06:07.644][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-10 23:06:07.646][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-10 23:06:07.649][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-10 23:06:07.652][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-10 23:06:07.655][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-10 23:06:07.657][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-10 23:06:07.660][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-10 23:06:07.663][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-10 23:06:07.666][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-10 23:06:07.669][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-10 23:06:07.672][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:06:07.674][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:06:07.677][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-10 23:06:07.680][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-10 23:06:07.683][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-10 23:06:07.685][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-10 23:06:07.688][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-10 23:06:07.691][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-10 23:06:07.694][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-10 23:06:07.697][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-10 23:06:07.699][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-10 23:06:07.702][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-10 23:06:07.705][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-10 23:06:07.708][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-10 23:06:07.711][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-10 23:06:07.713][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-10 23:06:07.716][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-10 23:06:07.719][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-10 23:06:07.723][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-10 23:06:07.736][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-10 23:06:07.738][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.742][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.744][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[2025-01-10 23:06:07.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.795][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[2025-01-10 23:06:07.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.892][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[2025-01-10 23:06:07.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.938][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.DEBUG[2025-01-10 23:06:07.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-10 23:06:07.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:07.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:07.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:07.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:07.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:07.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:07.954][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-10 23:06:07.956][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-10 23:06:07.959][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.961][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.962][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.964][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-10 23:06:07.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.967][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.968][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.970][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-10 23:06:07.971][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-10 23:06:07.973][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-10 23:06:07.974][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:07.976][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-10 23:06:07.977][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-10 23:06:07.978][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-10 23:06:07.980][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-10 23:06:07.981][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-10 23:06:07.981][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-10 23:06:07.981][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-10 23:06:07.983][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-10 23:06:07.984][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.987][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-10 23:06:07.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-10 23:06:07.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-10 23:06:07.992][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-10 23:06:07.994][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:06:07.994][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-10 23:06:07.996][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-10 23:06:07.997][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-10 23:06:07.999][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-10 23:06:08.001][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-10 23:06:08.001][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-10 23:06:08.004][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-10 23:06:08.007][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-10 23:06:08.009][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-10 23:06:08.012][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-10 23:06:08.015][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-10 23:06:08.018][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-10 23:06:08.024][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-10 23:06:08.026][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-10 23:06:08.029][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-10 23:06:08.032][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-10 23:06:08.035][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:06:08.037][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-10 23:06:08.040][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-10 23:06:08.042][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-10 23:06:08.046][biodb::testThat]
biodb.INFO [2025-01-10 23:06:08.048][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-01-10 23:06:08.050][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-10 23:06:08.051][biodb::testThat]
biodb.DEBUG[2025-01-10 23:06:08.055][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-10 23:06:08.062][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:08.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-10 23:06:08.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:08.071][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-10 23:06:08.077][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-10 23:06:08.082][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-10 23:06:08.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-01-10 23:06:08.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-10 23:06:08.089][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-01-10 23:06:08.093][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-01-10 23:06:08.095][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-10 23:06:08.097][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-01-10 23:06:08.100][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-10 23:06:08.102][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-10 23:06:08.104][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-10 23:06:08.106][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-10 23:06:08.108][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-10 23:06:08.109][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-10 23:06:08.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:08.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:08.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:08.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:08.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:08.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:08.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-10 23:06:08.130][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-01-10 23:06:08.134][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-10 23:06:08.135][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-10 23:06:08.136][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-01-10 23:06:11.786][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-01-10 23:06:12.400][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-10 23:06:12.403][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-01-10 23:06:12.409][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-01-10 23:06:12.413][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-01-10 23:06:12.417][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-10 23:06:12.419][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-10 23:06:12.420][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-10 23:06:12.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-10 23:06:12.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:12.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:12.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:12.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:12.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:12.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-10 23:06:12.443][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.447][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.454][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:06:12.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:06:12.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.458][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-10 23:06:12.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-10 23:06:12.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.465][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:06:12.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:06:12.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.469][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-10 23:06:12.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-10 23:06:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.478][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-10 23:06:12.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-10 23:06:12.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.483][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.486][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-10 23:06:12.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-10 23:06:12.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.491][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:06:12.496][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:06:12.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.500][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.503][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:06:12.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-10 23:06:12.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.511][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:06:12.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:06:12.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.517][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.520][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-10 23:06:12.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-10 23:06:12.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:06:12.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:06:12.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.534][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:06:12.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-10 23:06:12.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.545][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:06:12.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:06:12.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.551][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-10 23:06:12.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-10 23:06:12.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:06:12.565][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:06:12.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.569][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-10 23:06:12.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-10 23:06:12.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.590][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:06:12.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:06:12.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.596][ef$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-10 23:06:12.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-10 23:06:12.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-10 23:06:12.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-10 23:06:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-10 23:06:12.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-10 23:06:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-10 23:06:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-10 23:06:12.654][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-01-10 23:06:12.661][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-10 23:06:12.663][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-10 23:06:12.664][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-10 23:06:12.665][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-10 23:06:12.667][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-10 23:06:12.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-10 23:06:12.669][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-10 23:06:12.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-10 23:06:12.671][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-10 23:06:12.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
> 
> proc.time()
   user  system elapsed 
  25.21    1.84   68.50 

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 4.20 2.36317.55
ChebiEntry0.50.00.5