Pierrick Roger
| Snapshot Date: 2025-02-05 13:48 -0500 (Wed, 05 Feb 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 686a27c |
| git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-02-06 11:39 -0500 (Thu, 06 Feb 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4719 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4480 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4491 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4444 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2295 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
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. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2025-02-05 20:25:41 -0500 (Wed, 05 Feb 2025) |
| EndedAt: 2025-02-05 20:27:25 -0500 (Wed, 05 Feb 2025) |
| EllapsedTime: 103.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.13.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.13.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-02-05 20:26:24.929][biodb::testContext]
biodb.INFO [2025-02-05 20:26:24.931][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:24.932][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-05 20:26:24.933][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:24.934][biodb::testContext]
biodb.INFO [2025-02-05 20:26:24.941][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:24.943][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:24.950][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:24.951][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 20:26:24.952][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 20:26:24.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:24.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:24.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:24.956][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 20:26:24.977][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 20:26:24.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:24.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:24.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:24.981][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 20:26:24.983][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 20:26:24.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:24.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:24.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:24.987][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 20:26:24.988][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 20:26:24.989][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 20:26:24.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:24.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:24.992][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[2025-02-05 20:26:24.993][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 20:26:24.994][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 20:26:24.995][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 20:26:24.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:24.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:24.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:24.999][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 20:26:25.000][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 20:26:25.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.004][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 20:26:25.005][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 20:26:25.006][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 20:26:25.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.010][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 20:26:25.011][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 20:26:25.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.014][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[2025-02-05 20:26:25.015][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 20:26:25.016][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 20:26:25.018][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 20:26:25.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.021][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:25.023][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 20:26:25.024][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 20:26:25.025][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 20:26:25.026][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 20:26:25.027][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 20:26:25.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.031][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 20:26:25.032][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 20:26:25.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.036][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 20:26:25.037][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 20:26:25.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.041][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 20:26:25.042][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 20:26:25.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.046][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 20:26:25.047][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 20:26:25.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.051][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 20:26:25.052][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 20:26:25.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.056][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:25.057][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 20:26:25.062][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 20:26:25.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.065][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[2025-02-05 20:26:25.066][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 20:26:25.067][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 20:26:25.068][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 20:26:25.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.075][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 20:26:25.112][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.130][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 20:26:25.131][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.132][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:25.133][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.135][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.136][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.143][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.144][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:25.145][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:25.146][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.148][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 20:26:25.149][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:25.150][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.170][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.172][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:25.172][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:25.172][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:25.172][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:25.172][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:25.173][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:25.174][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.176][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:25.177][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.180][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.181][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:25.182][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:25.183][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.184][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.185][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 20:26:25.187][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.188][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:25.189][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.191][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:25.192][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.193][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.194][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.195][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.196][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:25.197][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:25.198][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.199][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 20:26:25.200][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:25.202][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.203][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.204][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:25.204][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:25.204][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:25.204][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:25.204][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:25.205][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:25.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.207][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.208][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:25.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.210][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.211][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.212][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.213][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:25.214][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:25.215][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.216][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.217][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 20:26:25.219][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.220][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 20:26:25.221][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.223][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:25.224][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.226][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.227][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.228][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:25.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:25.230][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.231][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 20:26:25.232][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:25.233][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.234][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.235][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.236][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:25.237][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:25.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.243][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:25.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:25.246][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.247][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.248][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 20:26:25.250][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.251][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:25.252][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.253][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:25.254][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.255][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.257][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.258][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.259][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:25.260][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:25.261][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.262][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 20:26:25.263][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:25.264][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.265][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.266][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.267][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:25.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.270][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:25.271][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.272][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.273][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.274][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.275][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:25.276][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:25.277][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.278][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:25.282][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:25.283][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.326][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[2025-02-05 20:26:25.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.345][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[2025-02-05 20:26:25.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.354][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[2025-02-05 20:26:25.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.365][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 20:26:25.369][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 20:26:25.371][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 20:26:25.372][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 20:26:25.374][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:25.375][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 20:26:25.377][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:25.378][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:25.380][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 20:26:25.381][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 20:26:25.383][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:25.384][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 20:26:25.386][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:25.387][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:25.389][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 20:26:25.390][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 20:26:25.392][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 20:26:25.393][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 20:26:25.395][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:25.396][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 20:26:25.398][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 20:26:25.399][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 20:26:25.401][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 20:26:25.402][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 20:26:25.404][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 20:26:25.405][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 20:26:25.407][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 20:26:25.408][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 20:26:25.410][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 20:26:25.411][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 20:26:25.413][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 20:26:25.414][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 20:26:25.416][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 20:26:25.417][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 20:26:25.419][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 20:26:25.420][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 20:26:25.422][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 20:26:25.424][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 20:26:25.425][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 20:26:25.427][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 20:26:25.428][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 20:26:25.430][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 20:26:25.431][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 20:26:25.432][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 20:26:25.434][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 20:26:25.435][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 20:26:25.437][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 20:26:25.438][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 20:26:25.440][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 20:26:25.441][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 20:26:25.443][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 20:26:25.444][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 20:26:25.445][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 20:26:25.447][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 20:26:25.448][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 20:26:25.450][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 20:26:25.451][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 20:26:25.453][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 20:26:25.454][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 20:26:25.456][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 20:26:25.462][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 20:26:25.464][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 20:26:25.465][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 20:26:25.466][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 20:26:25.468][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 20:26:25.469][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 20:26:25.470][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:25.471][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:25.473][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 20:26:25.474][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 20:26:25.475][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 20:26:25.477][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 20:26:25.478][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 20:26:25.479][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 20:26:25.481][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 20:26:25.482][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 20:26:25.484][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 20:26:25.485][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 20:26:25.486][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 20:26:25.488][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 20:26:25.489][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 20:26:25.490][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 20:26:25.492][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 20:26:25.498][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 20:26:25.499][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:25.502][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:25.503][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.505][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.599][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[2025-02-05 20:26:25.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:25.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:25.613][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:25.622][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 20:26:25.624][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.625][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.627][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:25.628][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.629][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.630][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.631][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 20:26:25.632][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 20:26:25.633][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:25.634][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.635][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 20:26:25.635][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 20:26:25.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 20:26:25.638][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:25.639][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:25.639][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:25.639][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:25.640][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 20:26:25.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:25.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:25.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:25.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:25.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:25.646][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 20:26:25.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:25.648][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:25.649][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:25.650][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 20:26:25.650][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 20:26:25.656][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:25.658][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:25.659][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 20:26:25.660][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:25.662][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:25.663][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:25.685][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 20:26:25.686][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 20:26:25.690][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 20:26:25.694][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 20:26:25.698][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:25.699][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:25.701][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 20:26:25.702][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 20:26:25.711][biodb::testThat]
biodb.INFO [2025-02-05 20:26:25.712][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-02-05 20:26:25.713][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:25.714][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:25.718][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-02-05 20:26:25.719][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:25.723][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:25.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:25.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:25.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:25.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:25.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:25.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:25.754][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[2025-02-05 20:26:25.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.766][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.783][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:25.784][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:25.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.786][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.811][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:25.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:25.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.816][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:25.817][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:25.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.818][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.820][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:25.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:25.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:25.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:25.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.827][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:25.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:25.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.832][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:25.833][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:25.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.835][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:25.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:25.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.840][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:25.841][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:25.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.843][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.844][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:25.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.848][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:25.849][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:25.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.851][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.852][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.856][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:25.857][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:25.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.859][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:25.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.865][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:25.866][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:25.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.868][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:25.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:25.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.873][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:25.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:25.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.876][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:25.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:25.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.881][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:25.882][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:25.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.884][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:25.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:25.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:25.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:25.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:25.962][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-02-05 20:26:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:25.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:25.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:25.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:25.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:25.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:26.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:26.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.045][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:26.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.049][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.150][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.179][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.203][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.206][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.222][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.237][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.240][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.264][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.267][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.293][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.305][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.313][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.317][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.318][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.320][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.332][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.340][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.344][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.345][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.347][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.363][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.372][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.374][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.375][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.394][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.397][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.399][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.400][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.401][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.425][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.427][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.450][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.451][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.453][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.469][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.470][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.472][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.476][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.477][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.479][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.483][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.484][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.486][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.493][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.498][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.500][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.505][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.507][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.511][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.512][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.514][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.519][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.520][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.521][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.526][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.527][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.529][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.533][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.536][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.540][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.541][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.543][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:26.550][biodb::testThat]
biodb.INFO [2025-02-05 20:26:26.551][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-05 20:26:26.552][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:26.553][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:26.566][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-02-05 20:26:26.573][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:26.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-02-05 20:26:26.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:26.580][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-02-05 20:26:26.581][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:26.604][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:26.605][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:26.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:26.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:26.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:26.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:26.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:26.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:26.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:26.618][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.621][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.642][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.643][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.645][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.646][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:26.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:26.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.653][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:26.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.661][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:26.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:26.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.669][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:26.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.677][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.683][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:26.684][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.691][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.693][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:26.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.708][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:26.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.716][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:26.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:26.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.725][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.726][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:26.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:26.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:26.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:26.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:26.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:26.769][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-02-05 20:26:26.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-05 20:26:26.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-05 20:26:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-05 20:26:26.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-05 20:26:26.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-05 20:26:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-05 20:26:26.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:26.788][biodb::testThat]
biodb.INFO [2025-02-05 20:26:26.789][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-05 20:26:26.790][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:26.791][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:26.794][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.797][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:26.798][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-02-05 20:26:26.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:26.838][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-02-05 20:26:26.843][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 20:26:26.863][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:26.878][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 20:26:26.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:26.881][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 20:26:26.908][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:26.912][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:26.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:26.914][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:26.916][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 20:26:26.918][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-02-05 20:26:26.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:26.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.935][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.936][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.937][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:26.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.939][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:26.943][biodb::testThat]
biodb.INFO [2025-02-05 20:26:26.944][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-02-05 20:26:26.945][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:26.946][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:26.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:26.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:26.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:27.032][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:27.036][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:27.037][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:27.039][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:27.040][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-02-05 20:26:27.055][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.056][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-02-05 20:26:27.057][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:27.058][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:27.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:27.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:27.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:27.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.099][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.103][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:27.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:27.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:27.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:27.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:27.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:27.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:27.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:27.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 20:26:27.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.167][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 20:26:27.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:27.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 20:26:27.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:27.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:27.180][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.181][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-05 20:26:27.182][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:27.183][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.191][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.192][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-05 20:26:27.193][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:27.194][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.201][biodb::testThat]
biodb.INFO [2025-02-05 20:26:27.202][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-05 20:26:27.203][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:27.204][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:27.208][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-02-05 20:26:27.872][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-02-05 20:26:28.959][biodb::testThat]
biodb.INFO [2025-02-05 20:26:28.961][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-05 20:26:28.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:28.965][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:29.357][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-02-05 20:26:29.772][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:29.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:29.831][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:29.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:29.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:29.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:29.836][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:29.838][biodb::testThat]
biodb.INFO [2025-02-05 20:26:29.839][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-02-05 20:26:29.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:29.841][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:29.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:29.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:29.858][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:29.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:29.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:29.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:29.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:29.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:29.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:29.946][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:29.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:29.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:29.952][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:29.954][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 20:26:30.023][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:30.026][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:30.027][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:30.029][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:30.030][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-02-05 20:26:30.050][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 20:26:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 20:26:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:30.084][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:30.087][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:30.088][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 20:26:30.090][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:30.091][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 20:26:30.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:30.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:30.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:30.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:30.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:30.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:30.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:30.103][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-02-05 20:26:30.147][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:30.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-02-05 20:26:30.150][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:30.151][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:30.152][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:30.153][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:30.154][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:30.155][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:30.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:30.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:30.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:30.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:30.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:30.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:30.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:30.168][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-02-05 20:26:30.170][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:30.171][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:30.172][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-02-05 20:26:30.534][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-02-05 20:26:30.891][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:30.894][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-02-05 20:26:30.909][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-02-05 20:26:30.912][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-02-05 20:26:30.914][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:30.915][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:30.916][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:30.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:30.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:30.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:30.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:30.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:30.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:30.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:30.930][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:30.931][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:30.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.933][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:30.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:30.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.948][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:30.949][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:30.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.950][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:30.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:30.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.956][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:30.957][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:30.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.959][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.965][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:30.966][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:30.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.967][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.973][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:30.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:30.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.976][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:30.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:30.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:30.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.984][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:30.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.988][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.990][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:30.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:30.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.994][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:30.995][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:30.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:30.997][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:30.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.002][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:31.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:31.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.005][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.006][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:31.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:31.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.010][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:31.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:31.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.013][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.015][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:31.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:31.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:31.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:31.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.022][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:31.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:31.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:31.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:31.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:31.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:31.068][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-02-05 20:26:31.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:31.090][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:31.093][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:31.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 20:26:31.096][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:31.097][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 20:26:31.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:31.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:31.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:31.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:31.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:31.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:31.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:31.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:31.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:31.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:31.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:31.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:31.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:31.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:31.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:31.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:31.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:31.152][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-02-05 20:26:31.153][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:31.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-02-05 20:26:31.156][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:31.157][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:31.158][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:31.159][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:31.160][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:31.161][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:31.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:31.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:31.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:31.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:31.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:31.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:31.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:31.186][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-02-05 20:26:31.202][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:31.203][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:31.219][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-02-05 20:26:31.581][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-02-05 20:26:31.935][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:31.940][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-02-05 20:26:31.948][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-02-05 20:26:31.953][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-02-05 20:26:31.956][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:31.959][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:31.961][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:31.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:31.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:31.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:32.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:32.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:32.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:32.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:32.155][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.161][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.173][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:32.175][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:32.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.179][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.181][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:32.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:32.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.189][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:32.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:32.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:32.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:32.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:32.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:32.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.207][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:32.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.213][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:32.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:32.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.217][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:32.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:32.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:32.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:32.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.226][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.227][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:32.228][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.230][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.232][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:32.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:32.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:32.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.239][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:32.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.244][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:32.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:32.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.248][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:32.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:32.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.264][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:32.265][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:32.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.267][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.273][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:32.274][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:32.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.276][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.277][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:32.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:32.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:32.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:32.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:32.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:32.321][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-02-05 20:26:32.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:32.352][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:32.355][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:32.356][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:32.358][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:32.359][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 20:26:32.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:32.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:32.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:32.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:32.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:32.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:32.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:32.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:32.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:32.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:32.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:32.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:32.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:32.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:32.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:32.393][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.DEBUG[2025-02-05 20:26:32.395][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-02-05 20:26:32.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:32.397][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-02-05 20:26:32.398][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:32.399][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:32.401][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:32.402][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:32.403][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:32.403][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:32.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:32.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:32.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:32.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:32.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:32.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:32.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:32.416][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-02-05 20:26:32.419][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:32.420][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:32.421][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-02-05 20:26:32.776][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-02-05 20:26:33.133][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:33.138][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-02-05 20:26:33.145][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-02-05 20:26:33.151][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-02-05 20:26:33.155][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:33.158][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:33.160][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:33.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:33.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.211][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.212][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.215][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.216][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.219][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.222][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.224][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.226][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.229][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.230][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.231][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.233][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.234][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.235][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.242][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.243][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.246][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.252][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.253][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.255][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.256][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.260][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.261][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.263][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.305][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-02-05 20:26:33.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:33.337][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-02-05 20:26:33.338][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:33.340][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-02-05 20:26:33.341][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:33.343][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-02-05 20:26:33.344][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:33.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:33.346][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:33.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:33.359][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.360][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.362][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.368][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.370][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.374][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.376][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.377][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.379][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.380][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.381][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.383][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.387][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.388][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.391][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.397][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.399][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.402][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.408][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.415][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.416][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.420][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.423][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.462][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-02-05 20:26:33.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:33.492][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-02-05 20:26:33.493][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:33.495][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-02-05 20:26:33.496][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:33.498][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-02-05 20:26:33.499][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:33.500][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:33.501][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:33.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:33.514][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.517][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.522][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.524][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.526][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.530][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.531][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.533][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.537][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.539][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.541][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.542][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.545][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.547][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.549][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.550][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.551][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.553][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.558][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.559][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.561][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.562][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.569][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.613][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-02-05 20:26:33.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:33.644][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-02-05 20:26:33.645][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:33.646][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-02-05 20:26:33.647][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:33.649][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-02-05 20:26:33.650][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:33.651][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:33.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:33.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:33.665][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.666][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.668][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.673][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.674][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.676][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.677][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.684][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.690][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.691][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.692][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.698][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.699][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.708][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.710][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.714][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.715][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.716][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.718][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.724][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.730][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.731][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.732][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.738][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.739][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.741][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.742][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.746][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.747][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.749][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.797][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-02-05 20:26:33.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:33.820][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-02-05 20:26:33.821][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:33.823][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-02-05 20:26:33.824][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:33.825][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-02-05 20:26:33.827][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:33.828][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:33.829][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:33.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:33.842][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.845][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.850][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.851][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.853][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:33.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.858][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.861][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:33.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:33.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.866][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.867][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.869][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:33.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:33.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.874][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.877][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:33.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.883][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.884][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.886][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.891][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.892][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.895][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:33.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.899][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.900][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.902][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:33.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.907][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.908][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.910][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:33.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.916][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.917][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.919][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.920][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:33.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.925][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.926][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.928][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:33.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:33.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:33.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.976][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-02-05 20:26:33.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:33.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:33.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:33.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:33.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:33.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:33.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:33.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:33.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:33.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:33.998][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-02-05 20:26:33.999][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.001][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-02-05 20:26:34.002][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.003][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-02-05 20:26:34.005][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.006][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.007][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.023][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.028][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.029][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.031][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.036][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.039][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.040][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.044][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.045][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.047][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.055][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.060][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.063][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.064][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.065][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.067][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.075][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.080][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.081][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.083][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.088][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.092][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.096][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.097][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.098][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.100][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.141][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-02-05 20:26:34.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:34.168][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-02-05 20:26:34.169][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.171][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-02-05 20:26:34.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.174][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-02-05 20:26:34.175][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.176][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.177][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.190][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.199][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.200][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.206][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.208][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.213][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.216][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.224][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.232][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.233][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.234][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.236][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.237][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.244][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.249][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.250][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.252][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.257][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.260][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.265][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.266][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.268][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.311][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-02-05 20:26:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:34.334][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-02-05 20:26:34.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.337][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-02-05 20:26:34.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.344][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-02-05 20:26:34.346][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.347][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.348][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.363][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.368][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.371][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.372][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.376][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.379][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.384][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.387][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.393][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.395][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.400][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.401][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.403][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.404][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.407][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.408][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.415][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.420][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.421][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.423][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.428][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.429][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.431][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.437][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.439][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.440][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.482][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-02-05 20:26:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:34.505][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-02-05 20:26:34.506][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.507][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-02-05 20:26:34.508][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.510][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-02-05 20:26:34.511][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.512][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.513][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.553][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.557][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.562][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.564][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.566][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.572][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.575][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.581][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.584][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.590][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.593][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.602][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.606][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.608][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.612][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.615][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.624][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.630][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.632][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.641][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.690][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-02-05 20:26:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:34.716][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-02-05 20:26:34.717][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.719][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-02-05 20:26:34.720][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.722][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-02-05 20:26:34.723][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.724][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.726][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.740][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.741][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.743][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.749][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.750][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.752][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.753][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.763][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.764][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.765][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.773][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.781][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.789][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.791][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.793][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.800][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.802][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.807][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.810][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.815][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.816][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.818][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.819][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.823][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.824][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.826][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.871][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-02-05 20:26:34.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:34.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:34.894][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-02-05 20:26:34.895][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:34.896][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-02-05 20:26:34.897][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:34.899][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-02-05 20:26:34.900][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:34.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:34.902][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:34.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:34.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:34.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:34.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:34.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:34.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:34.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:34.915][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.916][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.918][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:34.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:34.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.923][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.924][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.926][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:34.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:34.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.934][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.939][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:34.940][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:34.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.942][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.943][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.949][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:34.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.951][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:34.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.956][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.959][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.967][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:34.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.972][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.974][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.980][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.981][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.983][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:34.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:34.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.988][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:34.989][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:34.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.991][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:34.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:34.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:34.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.030][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-02-05 20:26:35.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:35.053][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-02-05 20:26:35.054][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-02-05 20:26:35.057][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.058][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-02-05 20:26:35.059][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.062][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.074][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.077][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.082][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.083][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.085][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.094][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.100][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.102][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.103][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.106][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.108][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.109][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.111][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.112][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.113][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.115][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.120][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.121][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.123][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.129][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.130][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.171][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.180][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.181][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.183][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.189][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.190][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.235][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-02-05 20:26:35.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:35.260][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-02-05 20:26:35.261][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.263][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-02-05 20:26:35.264][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.266][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-02-05 20:26:35.267][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.268][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.269][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.282][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.283][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.285][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.290][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.291][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.293][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.298][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.301][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.308][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.309][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.316][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.318][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.323][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.324][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.326][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.327][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.328][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.330][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.335][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.338][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.343][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.344][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.346][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.352][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.354][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.362][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.412][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-02-05 20:26:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:35.435][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-02-05 20:26:35.436][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.438][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-02-05 20:26:35.439][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.441][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-02-05 20:26:35.442][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.444][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.457][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.458][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.460][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.465][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.466][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.468][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.473][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.474][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.476][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.482][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.484][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.489][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.490][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.492][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.500][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.501][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.502][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.504][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.512][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.517][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.520][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.525][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.526][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.529][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.533][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.534][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.536][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.584][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-02-05 20:26:35.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:35.606][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-02-05 20:26:35.607][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.609][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-02-05 20:26:35.610][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.612][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-02-05 20:26:35.613][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.614][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.628][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.629][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.631][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.636][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.637][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.639][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.644][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.647][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.652][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.653][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.654][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.662][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.667][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.670][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.672][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.674][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.676][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.680][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.681][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.682][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.688][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.689][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.690][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.697][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.699][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.700][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.705][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.706][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.708][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.754][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-02-05 20:26:35.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:35.776][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-02-05 20:26:35.777][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-02-05 20:26:35.780][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.782][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-02-05 20:26:35.783][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.784][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.785][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.798][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.799][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.801][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.806][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.807][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.809][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.810][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.814][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.818][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.822][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.823][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.825][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:35.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:35.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.841][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.842][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.845][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.846][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:35.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.851][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.853][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:35.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.858][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.861][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:35.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:35.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.866][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.869][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:35.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:35.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.874][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.877][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:35.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:35.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:35.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.920][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-02-05 20:26:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:35.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:35.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.947][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[2025-02-05 20:26:35.948][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-02-05 20:26:35.949][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:35.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-02-05 20:26:35.952][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:35.954][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-02-05 20:26:35.955][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:35.956][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:35.957][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:35.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:35.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:35.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:35.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:35.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:35.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:35.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:35.970][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.972][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.973][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:35.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:35.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.979][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:35.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:35.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.987][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.989][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.995][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:35.996][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:35.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:35.998][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:35.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:36.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:36.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.004][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.006][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.014][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.015][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.016][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.018][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.026][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.035][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.040][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.041][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.043][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.052][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.096][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-02-05 20:26:36.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:36.119][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-02-05 20:26:36.120][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:36.121][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-02-05 20:26:36.127][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:36.129][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-02-05 20:26:36.131][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:36.132][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:36.133][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:36.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.146][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.149][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:36.155][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.157][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.158][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:36.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:36.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.162][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:36.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:36.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.165][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:36.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:36.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.171][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:36.172][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:36.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.173][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:36.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:36.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.179][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.182][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.187][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.190][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.191][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.195][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.199][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.200][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.202][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.207][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.210][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.216][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.217][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.219][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.224][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.227][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.272][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-02-05 20:26:36.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:36.294][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-02-05 20:26:36.295][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:36.297][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-02-05 20:26:36.298][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:36.300][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-02-05 20:26:36.301][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:36.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:36.303][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:36.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.321][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.322][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.324][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.329][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:36.330][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:36.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.332][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:36.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:36.338][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:36.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.340][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:36.347][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:36.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.348][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.354][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.355][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.356][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:36.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.362][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.363][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:36.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.365][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.366][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.367][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.369][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.374][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.375][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.377][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:36.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.382][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.383][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.385][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:36.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:36.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.391][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.392][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.393][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.395][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.400][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.401][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:36.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:36.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:36.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.445][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-02-05 20:26:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.475][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:36.478][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:36.480][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:36.481][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:36.483][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 20:26:36.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.677][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[2025-02-05 20:26:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.704][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.TRACE[2025-02-05 20:26:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.880][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[2025-02-05 20:26:36.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:36.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:36.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:36.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:36.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:36.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:36.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:36.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:36.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:36.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:36.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:36.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:37.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:37.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:37.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:37.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:37.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:37.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:37.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:37.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:37.103][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.INFO [2025-02-05 20:26:37.107][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-02-05 20:26:37.108][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:37.109][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:37.111][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:37.466][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:37.831][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:37.841][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-02-05 20:26:37.850][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-02-05 20:26:37.858][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:37.866][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:37.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:37.872][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:38.259][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:38.617][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:38.621][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-02-05 20:26:38.630][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-02-05 20:26:38.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:38.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:38.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:38.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:38.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:38.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:38.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:38.659][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-02-05 20:26:38.661][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:38.680][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-02-05 20:26:38.682][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:38.684][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:38.685][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:38.687][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:38.688][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:38.689][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:38.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:38.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:38.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:38.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:38.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:38.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:38.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:38.704][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-02-05 20:26:38.707][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:38.708][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:38.710][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-02-05 20:26:39.085][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-02-05 20:26:39.466][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2025-02-05 20:26:39.470][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-02-05 20:26:39.474][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-02-05 20:26:39.481][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-02-05 20:26:39.487][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-02-05 20:26:39.490][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:39.493][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:39.496][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:39.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:39.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:39.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:39.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:39.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:39.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:39.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:39.521][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.523][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.526][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.534][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:39.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:39.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.537][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.544][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:39.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:39.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.547][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:39.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:39.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.554][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:39.555][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:39.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.557][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:39.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:39.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:39.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:39.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.565][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.570][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:39.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:39.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.573][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.574][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:39.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.578][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:39.579][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:39.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.581][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:39.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.587][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.588][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.590][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.595][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:39.596][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:39.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.598][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:39.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:39.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.604][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:39.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:39.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.607][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.608][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:39.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:39.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:39.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:39.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.615][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:39.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:39.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:39.660][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-02-05 20:26:39.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:39.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:39.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:39.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:39.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:39.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:39.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:39.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:39.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:39.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:39.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:39.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:39.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:39.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:39.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:39.716][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-02-05 20:26:39.717][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:39.718][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-02-05 20:26:39.719][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:39.721][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:39.722][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:39.723][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:39.724][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:39.725][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:39.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:39.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:39.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:39.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:39.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:39.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:39.737][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[2025-02-05 20:26:39.738][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-02-05 20:26:39.741][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:39.742][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:39.743][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-02-05 20:26:40.111][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-02-05 20:26:40.475][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:40.481][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-02-05 20:26:40.489][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-02-05 20:26:40.495][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-02-05 20:26:40.499][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:40.502][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:40.505][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:40.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:40.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:40.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:40.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:40.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:40.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:40.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:40.533][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.535][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.538][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.546][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:40.547][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:40.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.549][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.556][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:40.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:40.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.560][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.566][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:40.567][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:40.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.569][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.575][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:40.576][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:40.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.578][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:40.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.584][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:40.585][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:40.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.587][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.589][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:40.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:40.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.592][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.593][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:40.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:40.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.597][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.599][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.601][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.606][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:40.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:40.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.609][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:40.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:40.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.615][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:40.616][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:40.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.618][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.620][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:40.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:40.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.624][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:40.625][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:40.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.627][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:40.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:40.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:40.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:40.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:40.687][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-02-05 20:26:40.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:40.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:40.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:40.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:40.721][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:40.725][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:40.726][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:40.728][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:41.225][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:41.726][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:41.730][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-02-05 20:26:41.738][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-02-05 20:26:41.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:41.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:41.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:41.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:41.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:41.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:41.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:41.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:41.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:41.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:41.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:41.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.286][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:42.289][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:42.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 20:26:42.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:42.293][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 20:26:42.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:42.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.778][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:42.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:42.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:42.789][biodb::testThat]
biodb.INFO [2025-02-05 20:26:42.790][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-02-05 20:26:42.791][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:42.792][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:42.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 20:26:42.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 20:26:42.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:42.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:42.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:42.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:42.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:42.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:42.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:42.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:42.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:42.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:42.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:42.828][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:42.832][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:42.833][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:42.834][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:43.199][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:43.559][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:43.564][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-02-05 20:26:43.571][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-02-05 20:26:43.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:43.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:43.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:43.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:43.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:43.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:43.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:43.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:43.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:43.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:43.619][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:43.623][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:43.624][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:43.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:43.984][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:44.341][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:44.343][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-02-05 20:26:44.347][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-02-05 20:26:44.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:44.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:44.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:44.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:44.393][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:44.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:44.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.413][private$selectFields]
biodb.TRACE[2025-02-05 20:26:44.413][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:44.414][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:44.415][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.419][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.423][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.424][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.425][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.429][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.430][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:44.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.451][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 20:26:44.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.461][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[2025-02-05 20:26:44.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.470][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.471][private$selectFields]
biodb.TRACE[2025-02-05 20:26:44.471][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:44.472][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:44.473][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.489][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.493][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.495][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.498][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.499][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:44.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.512][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:44.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.531][private$selectFields]
biodb.TRACE[2025-02-05 20:26:44.532][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:44.533][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:44.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.538][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.542][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.543][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.544][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:44.545][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.546][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.547][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:44.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:44.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.561][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 20:26:44.562][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:44.563][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:44.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:44.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:44.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:44.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:44.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:44.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:44.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:44.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:44.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:44.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:44.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:44.657][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:44.660][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:44.661][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:44.663][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:45.019][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:45.372][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:45.377][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-02-05 20:26:45.385][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-02-05 20:26:45.393][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:45.401][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:45.403][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:45.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:45.795][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:46.159][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:46.166][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-02-05 20:26:46.174][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-02-05 20:26:46.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.298][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:46.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.372][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.379][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.383][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.390][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.405][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 20:26:46.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.457][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.458][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.459][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.460][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.464][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.468][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.469][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.483][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.484][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.498][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:46.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.518][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.518][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.519][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.524][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.530][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.534][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.535][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.554][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 20:26:46.555][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:46.556][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:46.564][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:46.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:46.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:46.571][biodb::testThat]
biodb.INFO [2025-02-05 20:26:46.572][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-02-05 20:26:46.573][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:46.574][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:46.577][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 20:26:46.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 20:26:46.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:46.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:46.614][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:46.615][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 20:26:46.616][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:46.618][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 20:26:46.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.643][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:46.646][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:46.647][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 20:26:46.648][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:46.649][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 20:26:46.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:46.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.695][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:46.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.715][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.716][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.717][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.718][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.718][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.721][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.725][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.727][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.736][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.737][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.749][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 20:26:46.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.768][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.769][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.770][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.775][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.779][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.780][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.784][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.785][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.798][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:46.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.818][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.819][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.824][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.825][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.826][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.828][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.830][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.834][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.835][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:46.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.847][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 20:26:46.848][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:46.849][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:46.886][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:46.889][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:46.890][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-05 20:26:46.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:46.893][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-05 20:26:46.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:46.899][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:46.900][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-05 20:26:46.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:46.902][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-05 20:26:46.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:46.974][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:46.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:46.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:46.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:46.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:46.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:46.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:46.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:46.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:46.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:46.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.994][private$selectFields]
biodb.TRACE[2025-02-05 20:26:46.995][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:46.996][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:46.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:46.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:46.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.001][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.002][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.003][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.005][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.010][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.011][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.024][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 20:26:47.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.034][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[2025-02-05 20:26:47.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.043][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.044][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.045][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.054][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.056][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.060][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.073][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:47.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.093][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.094][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.099][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.102][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.104][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.106][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.108][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.110][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.112][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.114][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.115][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 20:26:47.128][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:47.129][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:47.138][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:47.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:47.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:47.145][biodb::testThat]
biodb.INFO [2025-02-05 20:26:47.146][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-02-05 20:26:47.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:47.147][biodb::testThat]
biodb.TRACE[2025-02-05 20:26:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 20:26:47.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 20:26:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:47.185][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:47.188][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:47.190][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 20:26:47.191][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:47.192][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 20:26:47.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.217][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:47.220][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:47.221][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 20:26:47.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:47.224][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 20:26:47.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.269][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:47.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.294][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.295][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.296][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.297][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.301][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.304][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.306][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.310][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.311][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.324][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 20:26:47.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.343][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.344][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.350][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.354][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.356][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.359][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.360][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:47.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.399][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.401][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.402][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.411][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.416][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.419][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.425][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.426][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.444][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 20:26:47.445][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:47.446][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:47.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:47.508][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:47.511][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:47.513][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-05 20:26:47.514][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:47.515][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-05 20:26:47.518][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:47.521][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:47.522][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-05 20:26:47.523][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:47.524][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-05 20:26:47.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:47.591][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 20:26:47.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.610][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.611][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.612][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.612][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.617][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.621][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.623][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.624][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.627][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.628][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.641][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 20:26:47.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.660][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.661][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.662][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.667][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.670][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.672][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.681][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.682][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.695][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 20:26:47.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:47.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.714][private$selectFields]
biodb.TRACE[2025-02-05 20:26:47.715][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 20:26:47.716][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 20:26:47.717][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.718][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.721][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.724][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.726][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 20:26:47.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.731][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 20:26:47.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:47.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:47.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 20:26:47.745][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 20:26:47.746][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 20:26:47.763][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:47.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 20:26:47.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:47.770][biodb::testThat]
biodb.INFO [2025-02-05 20:26:47.770][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-02-05 20:26:47.771][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:47.772][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:47.774][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-05 20:26:47.775][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:26:47.777][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-05 20:26:47.778][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:26:47.779][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:47.780][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:47.781][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:47.782][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:47.783][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:47.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:47.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:47.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:47.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:47.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:47.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:47.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:47.796][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-02-05 20:26:47.798][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:47.799][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:47.800][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-02-05 20:26:48.160][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-02-05 20:26:48.524][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:48.527][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-02-05 20:26:48.533][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-02-05 20:26:48.538][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-02-05 20:26:48.540][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:48.542][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:26:48.544][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:48.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:48.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:48.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:48.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:48.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:48.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:48.563][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[2025-02-05 20:26:48.567][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.569][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.571][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.579][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:48.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:48.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.583][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.584][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:48.585][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:48.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.588][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.589][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:48.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:48.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.593][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:48.595][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:48.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.597][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:48.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:48.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.601][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.602][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:48.603][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:48.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.610][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.616][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:48.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:48.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.619][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.620][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:48.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:48.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.623][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:48.625][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:48.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.627][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:48.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:48.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.631][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:48.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:48.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:48.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:48.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:48.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:48.671][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-02-05 20:26:48.672][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-05 20:26:48.680][biodb::testThat]
biodb.INFO [2025-02-05 20:26:48.681][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-05 20:26:48.682][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:48.683][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:48.691][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-02-05 20:26:48.693][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-02-05 20:26:48.694][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-02-05 20:26:48.695][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-02-05 20:26:48.697][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-02-05 20:26:48.698][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:26:48.699][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:26:48.700][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:48.701][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:26:48.702][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:26:48.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:48.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:48.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:48.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:48.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:48.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:48.715][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[2025-02-05 20:26:48.716][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-02-05 20:26:48.719][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:48.720][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:48.721][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-02-05 20:26:49.077][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-02-05 20:26:49.434][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:49.439][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-02-05 20:26:49.446][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-02-05 20:26:49.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:49.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:49.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:49.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:49.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:49.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:49.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:49.472][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-02-05 20:26:49.478][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:49.480][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:49.482][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-02-05 20:26:49.846][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-02-05 20:26:50.214][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:50.217][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-02-05 20:26:50.221][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-02-05 20:26:50.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:50.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:50.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:50.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:50.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:50.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:50.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:50.234][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-02-05 20:26:50.237][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:50.238][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:50.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-02-05 20:26:50.597][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-02-05 20:26:50.963][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:50.966][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-02-05 20:26:50.969][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-02-05 20:26:50.972][private$doSaveContentToFile] Saving to cache [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-02-05 20:26:50.974][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:26:50.975][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-02-05 20:26:50.977][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-02-05 20:26:50.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:50.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:50.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:50.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:50.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:50.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:50.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:51.008][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.010][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.012][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.018][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:51.019][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:51.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.020][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.022][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:51.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:51.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.025][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.026][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:51.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:51.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.029][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.033][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.034][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.035][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.037][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.038][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:51.039][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:51.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.041][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.042][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.045][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.047][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:51.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:51.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.051][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:51.052][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:51.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.054][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:51.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:51.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.058][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:51.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:51.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:51.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:51.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:51.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:51.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:51.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:51.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.100][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.102][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.107][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:51.108][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:51.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.110][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.111][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:51.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:51.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.115][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:51.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:51.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.118][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:51.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:51.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.124][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:51.125][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:51.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.126][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:51.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:51.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.132][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.133][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.135][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.143][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.148][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:51.150][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:51.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.151][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.153][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:51.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:51.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.160][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.165][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:51.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:51.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.168][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:51.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.173][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:51.174][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:51.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.176][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:51.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:51.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.181][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:51.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:51.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.184][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.185][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:51.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:51.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:51.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:51.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:51.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:51.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:51.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:51.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:51.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:26:51.234][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.235][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.242][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:51.243][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:51.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.245][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.246][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:26:51.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:26:51.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.250][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:51.251][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:51.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.253][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:26:51.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:26:51.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.258][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:51.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:51.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.261][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:26:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:26:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.267][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.268][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.269][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:26:51.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.276][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.278][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:26:51.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.283][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:51.284][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:51.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.286][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.287][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:26:51.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:26:51.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.294][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:51.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.300][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:51.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:51.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.303][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:51.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:51.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.308][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:51.309][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:51.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.311][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.312][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:26:51.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:26:51.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.316][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:51.318][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:51.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.319][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.321][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:26:51.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:26:51.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:26:51.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:51.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:26:51.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:26:51.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:51.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:26:51.394][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-02-05 20:26:51.395][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-05 20:26:51.396][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-02-05 20:26:51.408][biodb::testThat]
biodb.INFO [2025-02-05 20:26:51.409][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-02-05 20:26:51.410][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:51.411][biodb::testThat]
biodb.INFO [2025-02-05 20:26:51.434][biodb::testThat]
biodb.INFO [2025-02-05 20:26:51.436][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-02-05 20:26:51.437][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:51.438][biodb::testThat]
biodb.INFO [2025-02-05 20:26:51.445][biodb::testThat]
biodb.INFO [2025-02-05 20:26:51.446][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-02-05 20:26:51.447][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:51.448][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:51.451][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:51.454][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:51.455][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:51.457][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:51.874][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:52.392][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:52.397][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-02-05 20:26:52.406][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-02-05 20:26:52.431][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:26:52.433][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:26:52.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:52.437][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:26:52.439][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:52.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:26:52.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:26:52.444][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 20:26:52.447][biodb::testThat]
biodb.INFO [2025-02-05 20:26:52.448][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-02-05 20:26:52.450][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:52.451][biodb::testThat]
biodb.ERROR[2025-02-05 20:26:52.469][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-02-05 20:26:52.487][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-02-05 20:26:52.500][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 20:26:52.502][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 20:26:52.503][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 20:26:52.504][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 20:26:52.505][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:52.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:52.506][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.508][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 20:26:52.519][biodb::testContext]
biodb.INFO [2025-02-05 20:26:52.520][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:52.521][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-02-05 20:26:52.522][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:52.522][biodb::testContext]
biodb.INFO [2025-02-05 20:26:52.524][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:52.526][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:52.530][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:52.531][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 20:26:52.542][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.546][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 20:26:52.547][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.551][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 20:26:52.552][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.555][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 20:26:52.556][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 20:26:52.557][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 20:26:52.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.561][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 20:26:52.562][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 20:26:52.563][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.574][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 20:26:52.575][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 20:26:52.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.580][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 20:26:52.581][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 20:26:52.583][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 20:26:52.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.587][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 20:26:52.588][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.592][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 20:26:52.593][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 20:26:52.594][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 20:26:52.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.598][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:52.600][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 20:26:52.601][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 20:26:52.602][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 20:26:52.603][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 20:26:52.604][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 20:26:52.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.608][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 20:26:52.609][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 20:26:52.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.613][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 20:26:52.615][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 20:26:52.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.619][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 20:26:52.620][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 20:26:52.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.624][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 20:26:52.625][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 20:26:52.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.629][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 20:26:52.630][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 20:26:52.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.634][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:52.635][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 20:26:52.639][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 20:26:52.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.642][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[2025-02-05 20:26:52.643][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 20:26:52.644][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 20:26:52.645][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 20:26:52.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.649][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 20:26:52.652][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.653][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 20:26:52.654][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.655][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:52.656][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.658][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.659][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.661][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:52.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:52.663][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.664][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 20:26:52.665][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:52.666][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.667][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.668][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:52.668][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:52.668][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:52.668][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:52.668][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:52.670][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:52.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.672][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.673][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:52.674][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.676][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.677][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.678][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:52.679][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:52.680][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.682][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.683][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 20:26:52.685][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.686][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:52.687][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.689][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:52.690][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.691][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.692][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.693][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.694][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:52.696][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:52.697][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.698][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 20:26:52.699][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:52.700][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.701][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.702][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:52.702][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:52.702][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:52.702][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:52.702][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:52.703][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:52.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.706][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:52.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.709][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.711][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.712][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:52.713][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:52.714][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.715][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.716][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 20:26:52.718][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.719][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 20:26:52.720][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.722][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:52.723][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.724][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.725][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.726][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.727][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:52.728][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:52.729][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.730][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 20:26:52.731][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:52.732][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.733][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.734][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:52.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:52.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.743][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.744][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:52.745][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:52.761][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.762][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.764][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 20:26:52.766][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.767][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:52.768][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.769][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:52.770][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.771][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.772][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.773][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.774][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:52.775][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:52.776][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.777][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 20:26:52.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:52.779][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:52.782][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:52.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:52.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:52.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:52.788][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:52.789][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.790][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:52.791][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:52.792][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:52.793][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:52.794][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:52.795][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.809][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[2025-02-05 20:26:52.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.835][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[2025-02-05 20:26:52.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.871][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 20:26:52.872][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 20:26:52.873][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 20:26:52.875][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 20:26:52.876][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:52.878][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 20:26:52.879][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:52.880][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:52.882][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 20:26:52.883][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 20:26:52.884][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:52.886][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 20:26:52.887][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:52.888][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:52.890][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 20:26:52.891][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 20:26:52.893][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 20:26:52.894][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 20:26:52.895][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:52.897][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 20:26:52.898][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 20:26:52.899][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 20:26:52.901][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 20:26:52.902][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 20:26:52.903][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 20:26:52.905][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 20:26:52.906][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 20:26:52.907][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 20:26:52.909][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 20:26:52.910][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 20:26:52.911][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 20:26:52.913][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 20:26:52.914][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 20:26:52.915][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 20:26:52.917][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 20:26:52.918][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 20:26:52.919][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 20:26:52.921][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 20:26:52.922][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 20:26:52.923][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 20:26:52.925][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 20:26:52.926][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 20:26:52.927][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 20:26:52.929][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 20:26:52.930][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 20:26:52.937][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 20:26:52.939][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 20:26:52.940][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 20:26:52.941][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 20:26:52.943][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 20:26:52.944][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 20:26:52.945][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 20:26:52.947][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 20:26:52.948][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 20:26:52.949][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 20:26:52.951][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 20:26:52.952][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 20:26:52.953][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 20:26:52.955][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 20:26:52.956][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 20:26:52.957][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 20:26:52.959][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 20:26:52.960][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 20:26:52.961][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 20:26:52.963][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 20:26:52.964][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 20:26:52.965][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:52.967][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:52.968][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 20:26:52.969][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 20:26:52.971][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 20:26:52.972][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 20:26:52.973][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 20:26:52.975][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 20:26:52.976][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 20:26:52.977][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 20:26:52.979][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 20:26:52.980][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 20:26:52.981][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 20:26:52.983][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 20:26:52.984][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 20:26:52.986][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 20:26:52.987][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 20:26:52.988][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 20:26:52.990][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:52.991][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:52.992][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:52.994][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:52.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:52.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:52.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:52.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:52.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:52.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.055][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.DEBUG[2025-02-05 20:26:53.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.073][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[2025-02-05 20:26:53.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:53.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:53.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:53.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:53.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:53.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:53.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:53.099][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:53.100][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 20:26:53.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:53.103][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 20:26:53.104][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:53.110][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:53.112][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:53.113][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:53.114][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:53.115][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 20:26:53.116][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 20:26:53.117][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:53.117][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:53.118][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 20:26:53.119][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 20:26:53.120][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 20:26:53.121][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:53.122][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:53.122][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:53.122][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:53.123][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 20:26:53.124][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:53.125][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:53.126][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:53.127][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:53.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:53.129][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:53.130][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:53.130][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 20:26:53.131][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:53.132][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:53.133][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:53.134][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 20:26:53.134][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 20:26:53.135][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:53.137][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:53.138][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 20:26:53.139][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:53.141][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:53.143][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:53.146][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 20:26:53.147][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 20:26:53.148][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 20:26:53.150][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 20:26:53.151][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:53.152][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:53.153][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 20:26:53.154][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 20:26:53.155][biodb::testThat]
biodb.INFO [2025-02-05 20:26:53.156][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-02-05 20:26:53.157][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:53.158][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:53.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 20:26:53.166][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:53.167][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:53.168][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-02-05 20:26:53.514][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-02-05 20:26:54.016][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:54.019][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-02-05 20:26:54.024][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-02-05 20:26:54.030][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:54.035][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:54.036][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:54.039][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:54.393][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:54.760][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:54.765][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-02-05 20:26:54.773][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-02-05 20:26:54.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:54.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:54.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:54.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:54.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:54.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:54.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:54.802][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:54.808][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:54.810][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:54.813][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:55.178][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:55.543][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:55.545][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-02-05 20:26:55.549][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-02-05 20:26:55.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:55.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.586][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[2025-02-05 20:26:55.591][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:55.594][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:55.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-05 20:26:55.597][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:55.598][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-05 20:26:55.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:55.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:55.627][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:55.629][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-05 20:26:55.630][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:55.632][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-05 20:26:55.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.642][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[2025-02-05 20:26:55.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:55.655][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:55.658][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:55.660][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-05 20:26:55.661][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:55.662][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-05 20:26:55.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:55.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:55.678][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:55.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-05 20:26:55.680][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:55.682][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-05 20:26:55.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:55.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:55.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:55.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:55.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:55.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:55.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:55.694][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:55.697][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:55.698][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:55.700][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:56.062][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:56.421][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:56.426][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-02-05 20:26:56.434][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-02-05 20:26:56.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:56.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:56.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:56.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:56.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:56.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:56.458][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.INFO [2025-02-05 20:26:56.469][biodb::testThat]
biodb.INFO [2025-02-05 20:26:56.471][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-02-05 20:26:56.473][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:56.474][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:56.479][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:56.484][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:56.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:56.488][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:56.849][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:57.211][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:57.215][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-02-05 20:26:57.224][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-02-05 20:26:57.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:57.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:57.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:57.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:57.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:57.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:57.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:57.256][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:57.262][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:57.264][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:57.267][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:57.625][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:57.987][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:57.991][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-02-05 20:26:58.000][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-02-05 20:26:58.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:26:58.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.024][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.INFO [2025-02-05 20:26:58.034][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 20:26:58.036][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 20:26:58.038][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 20:26:58.040][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 20:26:58.041][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.044][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.047][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 20:26:58.053][biodb::testContext]
biodb.INFO [2025-02-05 20:26:58.055][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:58.056][biodb::testContext] Test context - Test web services
biodb.INFO [2025-02-05 20:26:58.057][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:58.074][biodb::testContext]
biodb.INFO [2025-02-05 20:26:58.076][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:58.078][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:58.082][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:58.083][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 20:26:58.084][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.087][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 20:26:58.088][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.092][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 20:26:58.093][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.096][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 20:26:58.097][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 20:26:58.098][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 20:26:58.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.102][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 20:26:58.103][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 20:26:58.104][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.108][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 20:26:58.109][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 20:26:58.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.111][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[2025-02-05 20:26:58.112][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 20:26:58.113][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 20:26:58.114][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 20:26:58.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.118][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 20:26:58.119][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.122][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 20:26:58.123][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 20:26:58.124][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 20:26:58.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.128][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:58.129][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 20:26:58.130][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 20:26:58.131][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 20:26:58.131][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 20:26:58.132][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 20:26:58.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.136][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 20:26:58.137][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 20:26:58.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.141][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 20:26:58.142][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 20:26:58.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.144][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[2025-02-05 20:26:58.145][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 20:26:58.146][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 20:26:58.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.150][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 20:26:58.151][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 20:26:58.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.154][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 20:26:58.155][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 20:26:58.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.159][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:58.160][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 20:26:58.163][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 20:26:58.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.167][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 20:26:58.167][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 20:26:58.169][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 20:26:58.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.172][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 20:26:58.174][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.175][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 20:26:58.176][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.177][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:58.178][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.179][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.180][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.181][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.182][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:58.183][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:58.184][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.185][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 20:26:58.185][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:58.186][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.187][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.188][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:58.188][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:58.188][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:58.188][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:58.188][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:58.189][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:58.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.192][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:58.193][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.194][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.195][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.196][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.197][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:58.198][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:58.199][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.199][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.201][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 20:26:58.202][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.203][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:58.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:58.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.208][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.210][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:58.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:58.212][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.213][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 20:26:58.214][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:58.215][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.216][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.217][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:58.217][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:58.217][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:58.217][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:58.217][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:58.218][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:58.219][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.220][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.220][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:58.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.222][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.223][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.224][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.225][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:58.226][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:58.227][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.228][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.229][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 20:26:58.231][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.232][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 20:26:58.233][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.234][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:58.234][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.235][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.236][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.237][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.238][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:58.239][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:58.240][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.241][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 20:26:58.242][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:58.243][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.244][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.250][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.252][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:58.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.255][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:58.256][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.257][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.257][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.258][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.259][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:58.260][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:58.261][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.262][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.263][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 20:26:58.265][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.266][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:58.267][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.268][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:58.269][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.270][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.271][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.272][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.273][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:58.274][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:58.275][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.276][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 20:26:58.277][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:58.278][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.279][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.280][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.281][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:58.282][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.284][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:58.285][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.286][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.287][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.288][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.289][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:58.290][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:58.292][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.294][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:58.296][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:58.298][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.310][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[2025-02-05 20:26:58.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.332][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[2025-02-05 20:26:58.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.364][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[2025-02-05 20:26:58.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.369][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[2025-02-05 20:26:58.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.379][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 20:26:58.380][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 20:26:58.382][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 20:26:58.383][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 20:26:58.385][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:58.386][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 20:26:58.388][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:58.389][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:58.390][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 20:26:58.392][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 20:26:58.393][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:58.394][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 20:26:58.396][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:58.397][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:58.399][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 20:26:58.400][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 20:26:58.401][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 20:26:58.403][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 20:26:58.404][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:58.405][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 20:26:58.407][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 20:26:58.408][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 20:26:58.410][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 20:26:58.411][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 20:26:58.412][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 20:26:58.414][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 20:26:58.415][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 20:26:58.416][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 20:26:58.418][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 20:26:58.420][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 20:26:58.421][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 20:26:58.422][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 20:26:58.424][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 20:26:58.425][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 20:26:58.426][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 20:26:58.433][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 20:26:58.435][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 20:26:58.436][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 20:26:58.438][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 20:26:58.439][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 20:26:58.440][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 20:26:58.442][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 20:26:58.443][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 20:26:58.444][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 20:26:58.446][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 20:26:58.447][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 20:26:58.449][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 20:26:58.450][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 20:26:58.451][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 20:26:58.453][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 20:26:58.454][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 20:26:58.455][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 20:26:58.457][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 20:26:58.458][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 20:26:58.459][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 20:26:58.461][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 20:26:58.462][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 20:26:58.464][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 20:26:58.465][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 20:26:58.466][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 20:26:58.468][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 20:26:58.469][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 20:26:58.470][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 20:26:58.472][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 20:26:58.473][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 20:26:58.475][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 20:26:58.476][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:58.477][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:58.479][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 20:26:58.480][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 20:26:58.482][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 20:26:58.483][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 20:26:58.484][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 20:26:58.486][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 20:26:58.487][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 20:26:58.488][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 20:26:58.490][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 20:26:58.491][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 20:26:58.492][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 20:26:58.494][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 20:26:58.495][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 20:26:58.497][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 20:26:58.498][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 20:26:58.499][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 20:26:58.501][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:58.502][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:58.503][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.504][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:58.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:58.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:58.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:58.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:58.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:58.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:58.616][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:58.617][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 20:26:58.619][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.620][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.621][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:58.623][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.624][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.625][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.626][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 20:26:58.627][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 20:26:58.628][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:58.629][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.630][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 20:26:58.631][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 20:26:58.632][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 20:26:58.633][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:58.634][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:58.634][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:58.634][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:58.635][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 20:26:58.636][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.637][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.638][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:58.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:58.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:58.641][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:58.642][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:26:58.642][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 20:26:58.643][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:58.644][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:58.645][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:58.646][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 20:26:58.646][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 20:26:58.647][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:58.649][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:58.650][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 20:26:58.652][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:58.653][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:26:58.655][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:26:58.658][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 20:26:58.659][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 20:26:58.660][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 20:26:58.662][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 20:26:58.663][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:58.664][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:26:58.665][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 20:26:58.666][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 20:26:58.667][biodb::testThat]
biodb.INFO [2025-02-05 20:26:58.668][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-02-05 20:26:58.669][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:26:58.670][biodb::testThat]
biodb.DEBUG[2025-02-05 20:26:58.673][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 20:26:58.676][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:26:58.678][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 20:26:58.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:26:58.680][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 20:26:58.684][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:26:58.687][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:26:58.688][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:26:58.690][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 20:26:59.041][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 20:26:59.400][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:26:59.405][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-02-05 20:26:59.414][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-02-05 20:26:59.431][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 20:26:59.433][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 20:26:59.436][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 20:26:59.438][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 20:26:59.440][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:26:59.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:26:59.444][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.447][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 20:26:59.455][biodb::testContext]
biodb.INFO [2025-02-05 20:26:59.456][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:59.458][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-02-05 20:26:59.459][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 20:26:59.461][biodb::testContext]
biodb.INFO [2025-02-05 20:26:59.464][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:26:59.466][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 20:26:59.471][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:59.473][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 20:26:59.474][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.478][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 20:26:59.480][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.484][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 20:26:59.485][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.489][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 20:26:59.490][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 20:26:59.491][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 20:26:59.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.494][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 20:26:59.495][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 20:26:59.496][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.499][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[2025-02-05 20:26:59.500][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 20:26:59.501][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 20:26:59.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.504][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 20:26:59.505][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 20:26:59.506][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 20:26:59.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.510][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 20:26:59.511][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.514][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 20:26:59.515][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 20:26:59.516][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 20:26:59.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.519][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[2025-02-05 20:26:59.520][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:59.521][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 20:26:59.522][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 20:26:59.523][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 20:26:59.702][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 20:26:59.707][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 20:26:59.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.710][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 20:26:59.711][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 20:26:59.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.715][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 20:26:59.716][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 20:26:59.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.719][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 20:26:59.720][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 20:26:59.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.724][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 20:26:59.725][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 20:26:59.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.728][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 20:26:59.729][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 20:26:59.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.733][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 20:26:59.733][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 20:26:59.737][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 20:26:59.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.740][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 20:26:59.741][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 20:26:59.742][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 20:26:59.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.746][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 20:26:59.748][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.749][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 20:26:59.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.750][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:59.751][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.752][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.753][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.754][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.755][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:59.756][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:59.757][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.758][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 20:26:59.759][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:59.760][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.761][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.762][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:59.762][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:59.762][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:59.762][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:59.762][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:59.763][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:59.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.764][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.765][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:59.766][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.768][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.769][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.770][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:59.771][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:59.771][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.772][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.773][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 20:26:59.775][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.776][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:59.777][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.778][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:59.779][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.780][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.781][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.782][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.783][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:59.784][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:59.784][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.785][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 20:26:59.786][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:59.787][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.788][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.789][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:26:59.789][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:26:59.789][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:26:59.789][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 20:26:59.789][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 20:26:59.790][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:59.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.793][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:59.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.794][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.795][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.796][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.797][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:59.798][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:59.799][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.800][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.801][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 20:26:59.803][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.803][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 20:26:59.804][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.805][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:59.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.807][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.808][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.809][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.810][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 20:26:59.811][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:59.812][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.813][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 20:26:59.814][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:59.815][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.816][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.817][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.817][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:59.818][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.819][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.820][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:59.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.823][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.824][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.825][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:59.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:59.826][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.827][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.828][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 20:26:59.830][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.831][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 20:26:59.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.833][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:26:59.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.836][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.838][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 20:26:59.839][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:26:59.840][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.841][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 20:26:59.842][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:26:59.843][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.844][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 20:26:59.845][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.845][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 20:26:59.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:26:59.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:26:59.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:26:59.851][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:26:59.852][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.853][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:26:59.854][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:26:59.855][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 20:26:59.855][self$setPropertyValue]
biodb.DEBUG[2025-02-05 20:26:59.857][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:26:59.858][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.876][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[2025-02-05 20:26:59.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.892][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[2025-02-05 20:26:59.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.926][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[2025-02-05 20:26:59.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:26:59.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:26:59.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:26:59.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:26:59.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:26:59.935][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 20:26:59.936][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 20:26:59.937][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 20:26:59.939][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 20:26:59.940][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:26:59.941][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 20:26:59.943][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:59.944][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:59.945][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 20:26:59.947][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 20:26:59.948][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:26:59.949][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 20:26:59.950][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 20:26:59.952][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 20:26:59.953][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 20:26:59.954][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 20:26:59.956][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 20:26:59.957][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 20:26:59.958][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:26:59.960][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 20:26:59.961][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 20:26:59.962][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 20:26:59.963][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 20:26:59.965][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 20:26:59.966][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 20:26:59.967][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 20:26:59.969][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 20:26:59.970][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 20:26:59.971][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 20:26:59.973][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 20:26:59.974][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 20:26:59.975][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 20:26:59.976][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 20:26:59.978][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 20:26:59.979][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 20:26:59.980][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 20:26:59.982][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 20:26:59.983][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 20:26:59.984][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 20:26:59.985][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 20:26:59.987][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 20:26:59.988][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 20:26:59.989][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 20:26:59.991][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 20:26:59.992][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 20:26:59.993][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 20:26:59.995][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 20:26:59.996][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 20:26:59.997][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 20:26:59.999][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 20:27:00.000][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 20:27:00.001][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 20:27:00.003][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 20:27:00.004][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 20:27:00.005][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 20:27:00.007][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 20:27:00.008][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 20:27:00.009][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 20:27:00.011][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 20:27:00.012][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 20:27:00.013][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 20:27:00.015][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 20:27:00.016][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 20:27:00.017][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 20:27:00.019][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 20:27:00.020][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 20:27:00.021][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:27:00.023][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:27:00.024][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 20:27:00.025][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 20:27:00.027][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 20:27:00.028][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 20:27:00.029][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 20:27:00.031][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 20:27:00.032][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 20:27:00.033][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 20:27:00.035][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 20:27:00.036][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 20:27:00.037][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 20:27:00.039][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 20:27:00.040][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 20:27:00.041][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 20:27:00.043][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 20:27:00.044][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 20:27:00.045][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 20:27:00.046][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 20:27:00.047][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.049][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.136][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[2025-02-05 20:27:00.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 20:27:00.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.155][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 20:27:00.156][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 20:27:00.158][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 20:27:00.159][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 20:27:00.160][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 20:27:00.161][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 20:27:00.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 20:27:00.163][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 20:27:00.164][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 20:27:00.165][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 20:27:00.166][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 20:27:00.167][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 20:27:00.168][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 20:27:00.169][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 20:27:00.170][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 20:27:00.171][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 20:27:00.172][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 20:27:00.173][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 20:27:00.173][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 20:27:00.173][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 20:27:00.174][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 20:27:00.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:27:00.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:27:00.176][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 20:27:00.177][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 20:27:00.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 20:27:00.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 20:27:00.180][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:27:00.180][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 20:27:00.181][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 20:27:00.182][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 20:27:00.183][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 20:27:00.184][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 20:27:00.184][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 20:27:00.186][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 20:27:00.187][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 20:27:00.189][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 20:27:00.190][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 20:27:00.192][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 20:27:00.194][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 20:27:00.197][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 20:27:00.198][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 20:27:00.199][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 20:27:00.200][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 20:27:00.201][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:27:00.202][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 20:27:00.203][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 20:27:00.204][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 20:27:00.206][biodb::testThat]
biodb.INFO [2025-02-05 20:27:00.207][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-02-05 20:27:00.208][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 20:27:00.208][biodb::testThat]
biodb.DEBUG[2025-02-05 20:27:00.211][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 20:27:00.215][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:27:00.216][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 20:27:00.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:27:00.218][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 20:27:00.222][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 20:27:00.225][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 20:27:00.226][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-05 20:27:00.227][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 20:27:00.228][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-02-05 20:27:00.232][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-02-05 20:27:00.237][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 20:27:00.239][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-02-05 20:27:00.240][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 20:27:00.241][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 20:27:00.242][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 20:27:00.243][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 20:27:00.244][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 20:27:00.244][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 20:27:00.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:27:00.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:00.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:00.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:00.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:00.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:00.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 20:27:00.256][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-02-05 20:27:00.259][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 20:27:00.260][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 20:27:00.261][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-02-05 20:27:00.637][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-02-05 20:27:01.707][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 20:27:01.712][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-02-05 20:27:01.720][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-02-05 20:27:01.726][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-02-05 20:27:01.730][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 20:27:01.732][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 20:27:01.735][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 20:27:01.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 20:27:01.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:01.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:01.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:01.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:01.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:01.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 20:27:01.759][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.762][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.781][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:27:01.782][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:27:01.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.784][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.786][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 20:27:01.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 20:27:01.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.790][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:27:01.790][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:27:01.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.792][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 20:27:01.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 20:27:01.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 20:27:01.798][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 20:27:01.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.800][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.802][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 20:27:01.803][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 20:27:01.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.804][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.806][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:27:01.807][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:27:01.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.809][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.810][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:27:01.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 20:27:01.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.814][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:27:01.815][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:27:01.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.816][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.818][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 20:27:01.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 20:27:01.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:27:01.823][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:27:01.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.824][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:27:01.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 20:27:01.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.830][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:27:01.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:27:01.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 20:27:01.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 20:27:01.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.838][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:27:01.839][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:27:01.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.841][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.843][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 20:27:01.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 20:27:01.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:27:01.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:27:01.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.849][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 20:27:01.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 20:27:01.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 20:27:01.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 20:27:01.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 20:27:01.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 20:27:01.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 20:27:01.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 20:27:01.904][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-02-05 20:27:01.908][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 20:27:01.909][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 20:27:01.910][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 20:27:01.911][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 20:27:01.912][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 20:27:01.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 20:27:01.913][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 20:27:01.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 20:27:01.915][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 20:27:01.916][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 368 ]
>
> proc.time()
user system elapsed
19.322 0.876 38.836
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.970 | 0.113 | 2.489 | |
| ChebiEntry | 0.150 | 0.005 | 0.154 | |