Pierrick Roger
| Snapshot Date: 2025-01-27 13:40 -0500 (Mon, 27 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 686a27c |
| git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-01-28 11:47 -0500 (Tue, 28 Jan 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" | 4659 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4454 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4465 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4419 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4409 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 201/2286 | 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 | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2025-01-28 03:55:12 -0000 (Tue, 28 Jan 2025) |
| EndedAt: 2025-01-28 03:56:58 -0000 (Tue, 28 Jan 2025) |
| EllapsedTime: 106.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2024-11-24 r87369)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.13.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’ * installing *source* package ‘biodbChebi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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 [2025-01-28 03:56:06.032][biodb::testContext]
biodb.INFO [2025-01-28 03:56:06.035][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:06.037][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-28 03:56:06.038][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:06.040][biodb::testContext]
biodb.INFO [2025-01-28 03:56:06.049][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:06.052][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:06.061][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:06.063][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-28 03:56:06.064][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.088][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-28 03:56:06.114][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.118][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[2025-01-28 03:56:06.119][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-28 03:56:06.121][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.125][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-28 03:56:06.127][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-28 03:56:06.128][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-28 03:56:06.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.133][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-28 03:56:06.134][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-28 03:56:06.136][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.141][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-28 03:56:06.142][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-28 03:56:06.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.147][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-28 03:56:06.148][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-28 03:56:06.149][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-28 03:56:06.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.154][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-28 03:56:06.155][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.160][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-28 03:56:06.162][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-28 03:56:06.163][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-28 03:56:06.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.168][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:06.169][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-28 03:56:06.170][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-28 03:56:06.172][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-28 03:56:06.173][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-28 03:56:06.174][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-28 03:56:06.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.179][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-28 03:56:06.180][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-28 03:56:06.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.185][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-28 03:56:06.187][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-28 03:56:06.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.191][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-28 03:56:06.193][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-28 03:56:06.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.198][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-28 03:56:06.199][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-28 03:56:06.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.204][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-28 03:56:06.205][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-28 03:56:06.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.210][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:06.211][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-28 03:56:06.217][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-28 03:56:06.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.222][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-28 03:56:06.223][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-28 03:56:06.225][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-28 03:56:06.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.233][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-28 03:56:06.280][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.307][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-28 03:56:06.308][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.310][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:06.311][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.312][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.314][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.315][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.316][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:06.317][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:06.319][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.320][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-28 03:56:06.321][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:06.330][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.332][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.333][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:06.333][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:06.333][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:06.333][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:06.333][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:06.335][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:06.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.337][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.338][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:06.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.342][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.343][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.345][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:06.346][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:06.347][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.349][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.350][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-28 03:56:06.353][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.354][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:06.355][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.357][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:06.358][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.359][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.361][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.362][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.363][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:06.365][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:06.366][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.367][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-28 03:56:06.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:06.370][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.371][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.373][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:06.373][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:06.373][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:06.373][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:06.373][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:06.374][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:06.375][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.377][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.378][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:06.379][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.380][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.382][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.383][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.384][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:06.386][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:06.387][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.388][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.390][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-28 03:56:06.392][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.394][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-28 03:56:06.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.396][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:06.398][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.399][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.400][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.402][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.403][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:06.404][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:06.406][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.407][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-28 03:56:06.409][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:06.410][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.412][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.413][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.415][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:06.416][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.417][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.418][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:06.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.422][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.424][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:06.426][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:06.428][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.429][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.431][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-28 03:56:06.433][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.435][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:06.436][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.437][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:06.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.440][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.441][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.443][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.444][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:06.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:06.447][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.448][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-28 03:56:06.450][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:06.451][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.453][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.454][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.455][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:06.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.459][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:06.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.463][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.464][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.466][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:06.467][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:06.468][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.470][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:06.475][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:06.476][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.533][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[2025-01-28 03:56:06.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.539][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[2025-01-28 03:56:06.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.545][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[2025-01-28 03:56:06.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.551][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[2025-01-28 03:56:06.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.557][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[2025-01-28 03:56:06.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.563][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[2025-01-28 03:56:06.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.589][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-28 03:56:06.595][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-28 03:56:06.598][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-28 03:56:06.600][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-28 03:56:06.601][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:06.603][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-28 03:56:06.605][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:06.607][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:06.609][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-28 03:56:06.611][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-28 03:56:06.613][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:06.615][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-28 03:56:06.617][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:06.618][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:06.620][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-28 03:56:06.622][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-28 03:56:06.624][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-28 03:56:06.626][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-28 03:56:06.628][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:06.630][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-28 03:56:06.632][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-28 03:56:06.634][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-28 03:56:06.635][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-28 03:56:06.637][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-28 03:56:06.639][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-28 03:56:06.641][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-28 03:56:06.643][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-28 03:56:06.645][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-28 03:56:06.647][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-28 03:56:06.649][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-28 03:56:06.651][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-28 03:56:06.653][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-28 03:56:06.655][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-28 03:56:06.657][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-28 03:56:06.659][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-28 03:56:06.661][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-28 03:56:06.663][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-28 03:56:06.665][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-28 03:56:06.667][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-28 03:56:06.669][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-28 03:56:06.671][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-28 03:56:06.673][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-28 03:56:06.675][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-28 03:56:06.677][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-28 03:56:06.679][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-28 03:56:06.681][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-28 03:56:06.683][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-28 03:56:06.685][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-28 03:56:06.687][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-28 03:56:06.689][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-28 03:56:06.691][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-28 03:56:06.693][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-28 03:56:06.695][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-28 03:56:06.697][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-28 03:56:06.699][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-28 03:56:06.701][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-28 03:56:06.703][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-28 03:56:06.705][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-28 03:56:06.707][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-28 03:56:06.708][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-28 03:56:06.710][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-28 03:56:06.712][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-28 03:56:06.714][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-28 03:56:06.716][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-28 03:56:06.718][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-28 03:56:06.720][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-28 03:56:06.722][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:06.724][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:06.726][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-28 03:56:06.728][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-28 03:56:06.730][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-28 03:56:06.732][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-28 03:56:06.734][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-28 03:56:06.736][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-28 03:56:06.738][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-28 03:56:06.740][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-28 03:56:06.742][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-28 03:56:06.744][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-28 03:56:06.746][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-28 03:56:06.748][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-28 03:56:06.749][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-28 03:56:06.751][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-28 03:56:06.753][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-28 03:56:06.761][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-28 03:56:06.763][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:06.768][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:06.769][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.771][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.863][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[2025-01-28 03:56:06.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:06.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:06.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:06.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:06.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:06.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:06.934][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[2025-01-28 03:56:06.936][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:06.949][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-28 03:56:06.952][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.953][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.955][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.956][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:06.958][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.959][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.960][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.962][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-28 03:56:06.963][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-28 03:56:06.964][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:06.966][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.967][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-28 03:56:06.968][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-28 03:56:06.970][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-28 03:56:06.971][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:06.973][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:06.973][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:06.973][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:06.974][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-28 03:56:06.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.977][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.978][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:06.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:06.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:06.982][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:06.983][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-28 03:56:06.983][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-28 03:56:06.985][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:06.986][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:06.987][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:06.988][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-28 03:56:06.988][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-28 03:56:06.997][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:06.999][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:07.001][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-28 03:56:07.003][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:07.005][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:07.007][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:07.036][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-28 03:56:07.038][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-28 03:56:07.043][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-28 03:56:07.048][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-28 03:56:07.054][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:07.055][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:07.057][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-28 03:56:07.058][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-28 03:56:07.118][biodb::testThat]
biodb.INFO [2025-01-28 03:56:07.119][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-01-28 03:56:07.121][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:07.122][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:07.128][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-01-28 03:56:07.130][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:07.135][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:07.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:07.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:07.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:07.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:07.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:07.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:07.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:07.181][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.185][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.211][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.215][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.261][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.265][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:07.273][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:07.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:07.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:07.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.283][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.284][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.294][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:07.296][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:07.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.305][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:07.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.309][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.311][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:07.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.317][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.318][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.320][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.328][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.332][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.349][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:07.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:07.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.353][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:07.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:07.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.360][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:07.362][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:07.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.364][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:07.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:07.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:07.476][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-01-28 03:56:07.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:07.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:07.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:07.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:07.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:07.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.555][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:07.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:07.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.561][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:07.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:07.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:07.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:07.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:07.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:07.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.719][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.723][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:07.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:07.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.775][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:07.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.815][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.817][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.820][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:07.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:07.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.849][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.855][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.856][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.859][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:07.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.893][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.895][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.898][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:07.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:07.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.954][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.967][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.972][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.979][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.983][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:07.984][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:07.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:07.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.001][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.007][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.013][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.019][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.021][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.023][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.025][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.048][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.054][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.060][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.064][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.066][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.088][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.100][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.102][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.105][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.143][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.147][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.190][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.211][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.213][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.222][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:08.224][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:08.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.226][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.233][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:08.235][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:08.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.246][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.248][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.257][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.259][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.266][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.268][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.271][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.277][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.279][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.282][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.288][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.290][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.293][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.300][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.302][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.305][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.311][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.316][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.324][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.327][ef$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:08.338][biodb::testThat]
biodb.INFO [2025-01-28 03:56:08.340][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-28 03:56:08.341][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:08.342][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:08.362][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-01-28 03:56:08.372][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:08.377][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-01-28 03:56:08.379][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:08.381][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-01-28 03:56:08.383][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:08.426][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:08.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:08.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:08.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:08.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:08.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:08.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:08.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:08.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:08.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.450][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.482][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:08.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:08.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.486][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:08.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.494][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:08.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:08.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.498][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:08.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:08.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.508][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.511][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:08.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.523][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.535][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:08.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.542][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:08.544][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.547][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:08.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.559][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.567][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.578][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.586][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:08.588][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.590][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.592][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:08.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:08.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.602][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:08.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:08.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:08.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:08.666][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-01-28 03:56:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-28 03:56:08.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-28 03:56:08.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-28 03:56:08.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-28 03:56:08.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-28 03:56:08.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-28 03:56:08.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:08.694][biodb::testThat]
biodb.INFO [2025-01-28 03:56:08.696][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-28 03:56:08.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:08.698][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:08.703][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.707][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:08.708][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-01-28 03:56:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:08.766][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-01-28 03:56:08.779][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-28 03:56:08.808][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:08.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-28 03:56:08.833][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:08.835][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-28 03:56:08.868][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:08.873][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:08.875][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:08.877][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:08.879][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:08.882][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-01-28 03:56:08.897][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.899][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:08.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.901][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.903][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.904][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:08.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.907][ef$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:08.912][biodb::testThat]
biodb.INFO [2025-01-28 03:56:08.914][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-01-28 03:56:08.915][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:08.916][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:08.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:08.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:09.050][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:09.054][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:09.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:09.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:09.059][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-01-28 03:56:09.080][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.081][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-01-28 03:56:09.083][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:09.084][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:09.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:09.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:09.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.157][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:09.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:09.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:09.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:09.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:09.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.230][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.235][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-28 03:56:09.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:09.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-28 03:56:09.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-28 03:56:09.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:09.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:09.258][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.259][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-28 03:56:09.260][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:09.262][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.272][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.274][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-28 03:56:09.275][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:09.276][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.287][biodb::testThat]
biodb.INFO [2025-01-28 03:56:09.288][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-28 03:56:09.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:09.291][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:09.303][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-01-28 03:56:11.130][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-01-28 03:56:13.731][biodb::testThat]
biodb.INFO [2025-01-28 03:56:13.733][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-28 03:56:13.734][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:13.735][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:14.526][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-01-28 03:56:16.966][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:16.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:16.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:16.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:16.978][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:16.989][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:16.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:16.997][ef$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:17.005][biodb::testThat]
biodb.INFO [2025-01-28 03:56:17.006][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-01-28 03:56:17.008][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:17.010][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:17.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:17.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:17.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:17.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:17.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:17.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:17.451][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:17.465][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:17.467][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:17.474][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:17.476][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:17.683][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:17.708][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:17.714][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:17.720][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:17.722][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-01-28 03:56:17.763][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-28 03:56:17.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-28 03:56:17.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:17.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:17.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:17.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:17.873][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:17.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:17.884][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-28 03:56:17.890][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:17.897][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-28 03:56:17.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:17.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:17.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:17.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:17.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:17.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:17.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:17.936][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-01-28 03:56:18.100][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:18.106][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-01-28 03:56:18.112][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:18.121][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-01-28 03:56:18.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:18.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:18.126][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:18.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:18.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:18.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:18.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:18.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:18.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:18.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:18.166][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.175][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.191][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:18.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:18.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:18.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.220][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:18.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:18.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.229][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:18.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:18.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:18.247][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:18.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.254][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:18.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.271][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:18.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:18.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.279][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:18.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:18.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.317][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:18.319][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:18.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.326][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.328][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:18.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.341][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.343][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:18.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:18.359][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:18.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.366][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:18.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:18.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.383][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:18.388][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:18.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.391][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:18.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:18.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.413][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:18.414][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:18.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.421][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.423][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:18.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:18.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.438][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:18.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:18.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.447][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.453][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:18.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:18.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:18.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:18.598][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-01-28 03:56:18.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:18.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:18.695][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:18.701][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-28 03:56:18.703][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:18.717][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-28 03:56:18.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:18.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:18.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:18.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:18.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:18.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:18.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:18.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:18.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:18.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:18.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:18.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:18.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:18.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:18.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:18.858][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[2025-01-28 03:56:18.860][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-01-28 03:56:18.865][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:18.868][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-01-28 03:56:18.874][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:18.881][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-01-28 03:56:18.883][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:18.888][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:18.890][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:18.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:18.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:18.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:18.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:18.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:18.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:18.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:18.947][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:18.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:18.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.976][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:18.978][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:18.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.985][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:18.987][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:18.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:18.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.001][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:19.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:19.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.010][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:19.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:19.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:19.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:19.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:19.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.058][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.065][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:19.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:19.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.090][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:19.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.105][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:19.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.131][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.152][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:19.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:19.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.161][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:19.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:19.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.179][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:19.184][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:19.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.188][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:19.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:19.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.209][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:19.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:19.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.218][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.220][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:19.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:19.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:19.387][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-01-28 03:56:19.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:19.489][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:19.498][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:19.500][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:19.506][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:19.512][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:19.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:19.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:19.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:19.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:19.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:19.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:19.553][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[2025-01-28 03:56:19.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:19.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:19.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:19.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:19.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:19.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:19.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:19.643][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[2025-01-28 03:56:19.649][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-01-28 03:56:19.650][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:19.657][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-01-28 03:56:19.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:19.669][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-01-28 03:56:19.671][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:19.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:19.674][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:19.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:19.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:19.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:19.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:19.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:19.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:19.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:19.714][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.716][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.723][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:19.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:19.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.739][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:19.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:19.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.748][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.754][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:19.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:19.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.769][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:19.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:19.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.778][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.780][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:19.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.792][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.794][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:19.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:19.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.803][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.809][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:19.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:19.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.817][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.825][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:19.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.828][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.834][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:19.835][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:19.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.842][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:19.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:19.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.859][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:19.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:19.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:19.868][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:19.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:19.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.024][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:20.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:20.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.034][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:20.176][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-01-28 03:56:20.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:20.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:20.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:20.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:20.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:20.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:20.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:20.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:20.281][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-01-28 03:56:20.283][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:20.289][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-01-28 03:56:20.291][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:20.305][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-01-28 03:56:20.307][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:20.308][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:20.310][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:20.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:20.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:20.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:20.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:20.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:20.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:20.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:20.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.374][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.381][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.397][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:20.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:20.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.406][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:20.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:20.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.421][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.423][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:20.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:20.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.432][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.438][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:20.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:20.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.447][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.453][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:20.455][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:20.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.462][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.464][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:20.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.476][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.479][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:20.484][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:20.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.487][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.493][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:20.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:20.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.502][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:20.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:20.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.524][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:20.526][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:20.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.533][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.535][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:20.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.550][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:20.552][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:20.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.559][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:20.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:20.718][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-01-28 03:56:20.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:20.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:20.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:20.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:20.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:20.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:20.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:20.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:20.822][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-01-28 03:56:20.823][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:20.830][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-01-28 03:56:20.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:20.845][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-01-28 03:56:20.847][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:20.848][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:20.850][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:20.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:20.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:20.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:20.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:20.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:20.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:20.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:20.891][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.904][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:20.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:20.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.921][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:20.923][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:20.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.930][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:20.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:20.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.945][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.948][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:20.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:20.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.961][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:20.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:20.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.978][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:20.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:20.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:20.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:20.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:20.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:20.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.002][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.034][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.036][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:21.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:21.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:21.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:21.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.067][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:21.072][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:21.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.075][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:21.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.096][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:21.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:21.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.105][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:21.244][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-01-28 03:56:21.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:21.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:21.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:21.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:21.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:21.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:21.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:21.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:21.372][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-01-28 03:56:21.377][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:21.380][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-01-28 03:56:21.386][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:21.393][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-01-28 03:56:21.395][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:21.400][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:21.402][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:21.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:21.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:21.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:21.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:21.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:21.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:21.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:21.443][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.452][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.472][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:21.474][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:21.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.481][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.483][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:21.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.498][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:21.499][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:21.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.507][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:21.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:21.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.524][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:21.529][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:21.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.536][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:21.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:21.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:21.554][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:21.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.561][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:21.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:21.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.577][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:21.579][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:21.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.586][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.588][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:21.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:21.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.602][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:21.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:21.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.636][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:21.658][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:21.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.665][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:21.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:21.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:21.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.707][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.714][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:21.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:21.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.724][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:21.730][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:21.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.737][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.739][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:21.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:21.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:21.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:21.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:21.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:21.876][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-01-28 03:56:21.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:21.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:21.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:21.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:21.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:21.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:21.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:21.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:21.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:21.947][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-01-28 03:56:21.953][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:21.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-01-28 03:56:21.961][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:21.969][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-01-28 03:56:21.971][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:21.976][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:21.978][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:22.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:22.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:22.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:22.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:22.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:22.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:22.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:22.035][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.041][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.044][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.060][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:22.066][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:22.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.073][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:22.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.089][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:22.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:22.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.098][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:22.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:22.116][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:22.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.123][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:22.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.145][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.148][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.168][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.170][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.193][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:22.195][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.202][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.204][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.220][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.227][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.243][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:22.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:22.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.273][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:22.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:22.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.282][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.284][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:22.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:22.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:22.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.324][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:22.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:22.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:22.467][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-01-28 03:56:22.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:22.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:22.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:22.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:22.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:22.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:22.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:22.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:22.540][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-01-28 03:56:22.546][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:22.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-01-28 03:56:22.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:22.561][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-01-28 03:56:22.563][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:22.569][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:22.570][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:22.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:22.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:22.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:22.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:22.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:22.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:22.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:22.628][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.641][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.659][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:22.665][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:22.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.674][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:22.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:22.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:22.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:22.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.698][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:22.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:22.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.715][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:22.720][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:22.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.724][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:22.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:22.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.747][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.755][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.771][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:22.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.786][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:22.788][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.795][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.802][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:22.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.817][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.819][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.827][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:22.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.844][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:22.849][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:22.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:22.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.873][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:22.875][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:22.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.882][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.884][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:22.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:22.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.899][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:22.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:22.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.907][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.914][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:22.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:22.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:22.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:22.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:22.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:22.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:23.074][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-01-28 03:56:23.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:23.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:23.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:23.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:23.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:23.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:23.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:23.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:23.147][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-01-28 03:56:23.153][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:23.155][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-01-28 03:56:23.161][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:23.169][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-01-28 03:56:23.170][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:23.176][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:23.178][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:23.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:23.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:23.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:23.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:23.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:23.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:23.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:23.218][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.220][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.227][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.244][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:23.250][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:23.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.257][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:23.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:23.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:23.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:23.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:23.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.316][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:23.322][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:23.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.329][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:23.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:23.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.345][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.347][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.354][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:23.376][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:23.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.379][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.385][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:23.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.394][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.400][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:23.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:23.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:23.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.419][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:23.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:23.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.435][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:23.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:23.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.444][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:23.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:23.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.465][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:23.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:23.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.473][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:23.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.490][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:23.491][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:23.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.498][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.504][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:23.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:23.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:23.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:23.704][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-01-28 03:56:23.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:23.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:23.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:23.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:23.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:23.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:23.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:23.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:23.784][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-01-28 03:56:23.786][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:23.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-01-28 03:56:23.795][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:23.809][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-01-28 03:56:23.811][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:23.813][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:23.814][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:23.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:23.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:23.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:23.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:23.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:23.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:23.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:23.852][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.865][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:23.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.882][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:23.884][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:23.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.891][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.897][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:23.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:23.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.908][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:23.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:23.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.920][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:23.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:23.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:23.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.945][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:23.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:23.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.980][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:23.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:23.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:23.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:24.009][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:24.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.012][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.018][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:24.019][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.026][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.032][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:24.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.043][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.051][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.067][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:24.073][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:24.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.076][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:24.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:24.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.097][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:24.098][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:24.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.105][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:24.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:24.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.122][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:24.124][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:24.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.131][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:24.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:24.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:24.300][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-01-28 03:56:24.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:24.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:24.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:24.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:24.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:24.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:24.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:24.378][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[2025-01-28 03:56:24.379][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-01-28 03:56:24.385][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:24.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-01-28 03:56:24.394][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:24.401][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-01-28 03:56:24.402][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:24.408][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:24.410][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:24.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:24.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:24.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:24.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:24.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:24.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:24.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:24.451][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.460][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.480][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:24.482][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:24.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.489][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:24.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:24.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.506][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:24.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:24.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.515][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.521][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:24.537][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:24.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.540][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:24.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:24.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.560][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:24.562][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:24.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.569][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:24.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:24.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.586][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:24.587][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:24.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.618][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:24.619][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.627][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.637][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:24.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.643][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.653][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.656][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:24.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.673][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:24.674][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:24.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:24.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:24.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:24.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:24.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.711][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:24.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:24.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:24.733][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:24.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:24.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:24.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:24.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:24.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:24.879][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-01-28 03:56:24.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:24.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:24.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:24.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:24.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:24.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:24.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:24.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:24.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:24.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:24.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:24.964][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-01-28 03:56:24.969][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:24.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-01-28 03:56:24.982][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:24.989][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-01-28 03:56:24.990][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:24.992][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:24.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:25.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:25.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:25.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:25.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:25.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:25.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:25.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:25.034][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.036][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.043][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.060][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:25.066][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:25.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.073][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:25.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:25.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:25.096][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:25.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.099][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:25.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.116][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:25.121][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:25.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.128][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:25.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.145][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.154][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.170][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:25.172][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:25.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.179][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.185][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:25.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.196][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.212][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.252][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:25.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:25.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.264][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:25.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:25.283][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:25.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:25.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:25.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.306][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:25.312][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:25.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.315][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.321][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:25.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:25.460][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-01-28 03:56:25.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:25.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:25.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:25.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:25.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:25.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:25.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:25.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:25.553][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-01-28 03:56:25.555][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:25.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-01-28 03:56:25.564][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:25.577][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-01-28 03:56:25.579][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:25.580][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:25.582][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:25.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:25.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:25.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:25.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:25.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:25.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:25.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:25.623][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.631][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.648][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:25.654][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:25.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.661][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.663][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.678][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:25.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:25.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.687][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:25.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:25.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:25.709][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:25.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.716][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.718][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:25.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.727][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.734][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:25.735][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:25.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.743][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.749][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:25.751][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.758][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.764][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:25.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.782][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.789][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:25.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.806][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:25.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:25.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.815][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:25.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:25.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.832][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:25.838][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:25.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.844][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:25.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.877][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:25.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:25.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.886][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:25.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:25.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:26.021][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-01-28 03:56:26.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:26.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:26.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:26.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:26.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:26.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:26.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:26.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:26.095][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-01-28 03:56:26.100][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:26.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-01-28 03:56:26.109][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:26.117][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-01-28 03:56:26.119][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:26.125][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:26.126][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:26.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:26.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:26.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:26.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:26.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:26.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:26.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:26.167][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.215][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:26.221][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:26.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.224][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:26.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:26.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.245][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:26.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:26.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.255][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:26.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.270][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:26.272][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:26.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.279][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.285][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.287][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:26.302][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:26.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.309][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.311][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:26.317][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.324][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.350][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.367][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:26.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:26.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.381][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:26.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:26.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:26.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.407][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:26.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:26.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.428][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:26.430][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:26.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.438][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:26.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:26.598][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-01-28 03:56:26.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:26.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:26.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:26.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:26.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:26.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:26.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:26.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:26.678][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-01-28 03:56:26.679][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:26.686][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-01-28 03:56:26.692][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:26.701][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-01-28 03:56:26.703][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:26.704][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:26.706][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:26.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:26.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:26.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:26.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:26.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:26.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:26.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:26.753][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.754][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.762][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:26.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:26.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.779][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:26.785][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:26.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.792][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:26.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:26.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.809][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:26.811][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:26.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.819][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:26.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:26.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.836][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:26.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:26.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.874][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:26.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:26.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.898][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.905][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.923][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:26.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:26.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.932][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.938][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:26.944][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.948][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.954][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:26.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.971][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.978][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:26.996][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:27.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:27.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:27.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:27.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.028][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:27.034][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:27.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.042][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:27.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:27.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.074][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.080][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:27.250][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-01-28 03:56:27.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:27.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:27.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:27.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:27.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:27.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:27.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:27.322][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[2025-01-28 03:56:27.328][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-01-28 03:56:27.330][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:27.336][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-01-28 03:56:27.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:27.349][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-01-28 03:56:27.351][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:27.356][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:27.358][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:27.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:27.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:27.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:27.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:27.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:27.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:27.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:27.399][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.405][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.408][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.428][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:27.430][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:27.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.437][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.439][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:27.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:27.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.454][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:27.456][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:27.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.463][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:27.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:27.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.480][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:27.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:27.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.492][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:27.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:27.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:27.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:27.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.518][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:27.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:27.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:27.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.560][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.566][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:27.572][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.575][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.581][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:27.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:27.598][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:27.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.605][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:27.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.622][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:27.623][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:27.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.631][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:27.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.652][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:27.654][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:27.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.661][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:27.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:27.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:27.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:27.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.687][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:27.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:27.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:27.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:27.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:27.845][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-01-28 03:56:27.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:27.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:27.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:27.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:27.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:27.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:27.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:27.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:27.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:27.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:27.940][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-01-28 03:56:27.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:27.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-01-28 03:56:27.951][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:27.961][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-01-28 03:56:27.963][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:27.969][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:27.971][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:27.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:27.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:27.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:27.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:28.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:28.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:28.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:28.012][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.025][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.042][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:28.043][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:28.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.051][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.057][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:28.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.068][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:28.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:28.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.081][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.083][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:28.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:28.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:28.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:28.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.107][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:28.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.124][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.130][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.154][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:28.155][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:28.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.163][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.169][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:28.171][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.178][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.180][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:28.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.195][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.201][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.220][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.259][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:28.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:28.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.272][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:28.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.291][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:28.297][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:28.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.305][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:28.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:28.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:28.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:28.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.332][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:28.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:28.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:28.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:28.506][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-01-28 03:56:28.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:28.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:28.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:28.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:28.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:28.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:28.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:28.618][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[2025-01-28 03:56:28.625][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-01-28 03:56:28.627][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:28.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-01-28 03:56:28.641][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:28.649][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-01-28 03:56:28.651][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:28.653][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:28.655][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:28.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:28.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:28.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:28.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:28.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:28.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:28.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:28.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.710][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:28.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:28.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:28.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:28.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.742][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:28.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.757][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:28.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:28.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.766][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:28.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:28.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:28.789][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:28.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.792][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:28.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:28.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.813][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.822][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.839][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:28.845][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:28.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.848][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.854][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:28.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.863][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.869][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:28.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:28.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.886][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:28.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.910][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:28.912][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:28.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.919][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:28.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:28.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.941][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:28.959][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:28.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.967][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:28.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:28.989][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:28.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:28.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:28.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.000][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:29.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:29.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:29.157][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-01-28 03:56:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:29.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:29.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:29.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:29.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:29.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:29.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:29.232][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[2025-01-28 03:56:29.238][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-01-28 03:56:29.239][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:29.246][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-01-28 03:56:29.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:29.261][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-01-28 03:56:29.263][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:29.269][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:29.271][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:29.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:29.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:29.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:29.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:29.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:29.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:29.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:29.335][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.344][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.365][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:29.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:29.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.375][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:29.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:29.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.397][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:29.399][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:29.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.406][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:29.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.424][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:29.430][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:29.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.437][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:29.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:29.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:29.460][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:29.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.464][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:29.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:29.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:29.487][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:29.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.495][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.501][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:29.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.510][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.512][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.527][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:29.533][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:29.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.540][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:29.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.558][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:29.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:29.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:29.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:29.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.584][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:29.590][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:29.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.597][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.599][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:29.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:29.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.614][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:29.615][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:29.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.623][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:29.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:29.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:29.796][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-01-28 03:56:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:29.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:29.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:29.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:29.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:29.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:29.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:29.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:29.871][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-01-28 03:56:29.877][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:29.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-01-28 03:56:29.886][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:29.893][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-01-28 03:56:29.895][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:29.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:29.903][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:29.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:29.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:29.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:29.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:29.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:29.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:29.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:29.944][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.957][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:29.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:29.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:29.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:29.991][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:29.997][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:29.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.004][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:30.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:30.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.022][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:30.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:30.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.031][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:30.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.052][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:30.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:30.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.061][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:30.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:30.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.084][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.088][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.110][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:30.111][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:30.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.119][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.125][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:30.127][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.134][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.141][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:30.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.183][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:30.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:30.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.192][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:30.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:30.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.214][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:30.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:30.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.223][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.229][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:30.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:30.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:30.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:30.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.256][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:30.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:30.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:30.436][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-01-28 03:56:30.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:30.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:30.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:30.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:30.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:30.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:30.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:30.518][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[2025-01-28 03:56:30.525][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-01-28 03:56:30.527][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:30.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-01-28 03:56:30.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:30.549][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-01-28 03:56:30.551][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:30.553][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:30.555][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:30.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:30.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:30.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:30.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:30.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:30.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:30.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:30.601][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.602][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.609][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.626][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:30.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:30.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.635][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.641][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:30.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.651][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:30.674][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:30.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.681][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:30.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:30.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.707][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:30.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.724][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.729][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:30.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:30.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.762][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.764][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:30.770][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.777][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:30.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.793][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.802][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:30.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.818][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:30.820][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:30.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.827][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.833][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:30.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:30.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.843][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:30.849][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:30.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:30.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:30.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.873][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:30.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:30.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.882][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:30.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:30.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:30.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:30.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:30.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:30.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:31.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:31.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:31.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:31.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:31.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:31.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.050][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-01-28 03:56:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.147][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:31.160][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:31.162][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:31.168][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:31.170][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:31.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.488][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.TRACE[2025-01-28 03:56:31.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:31.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:31.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:31.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:31.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:31.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:31.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:31.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:31.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:31.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:31.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:31.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.118][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.TRACE[2025-01-28 03:56:32.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.293][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.TRACE[2025-01-28 03:56:32.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.364][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.TRACE[2025-01-28 03:56:32.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:32.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:32.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:32.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:32.915][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:32.919][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:32.921][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-01-28 03:56:32.923][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:32.929][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-01-28 03:56:32.937][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:32.946][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:32.953][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-01-28 03:56:32.955][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:32.961][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-01-28 03:56:32.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:32.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:32.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:32.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:32.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:32.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:32.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:33.001][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-01-28 03:56:33.003][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:33.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-01-28 03:56:33.011][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:33.020][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-01-28 03:56:33.022][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:33.023][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:33.025][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:33.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:33.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:33.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:33.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:33.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:33.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:33.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:33.052][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.054][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.058][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.066][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:33.073][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:33.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.081][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:33.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:33.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:33.099][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:33.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.106][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.112][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:33.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:33.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.118][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:33.119][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:33.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.122][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:33.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:33.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.130][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:33.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:33.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.134][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:33.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.141][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:33.143][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:33.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.145][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:33.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:33.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.153][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:33.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:33.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:33.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:33.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.186][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.203][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:33.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:33.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:33.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.227][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:33.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:33.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.242][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:33.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:33.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:33.257][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:33.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.266][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:33.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:33.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:33.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:33.419][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-01-28 03:56:33.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:33.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:33.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:33.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:33.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:33.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:33.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:33.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:33.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:33.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:33.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:33.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:33.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:33.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:33.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:33.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:33.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:33.563][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-01-28 03:56:33.569][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:33.572][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-01-28 03:56:33.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:33.949][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-01-28 03:56:33.951][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:33.957][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:33.958][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:33.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:33.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:33.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:33.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:33.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:33.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:33.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:33.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:33.987][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:33.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:33.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.007][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:34.008][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:34.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.011][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:34.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:34.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.020][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:34.021][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:34.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.024][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:34.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:34.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.032][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:34.034][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:34.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.037][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:34.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.045][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:34.047][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:34.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.050][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:34.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.058][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:34.060][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:34.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.063][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.065][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:34.067][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:34.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.070][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.072][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:34.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.078][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.080][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.083][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.091][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:34.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:34.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.095][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:34.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:34.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.104][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:34.106][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:34.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.111][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:34.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:34.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:34.119][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:34.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.122][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:34.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:34.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.192][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-01-28 03:56:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.242][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:34.247][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:34.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:34.251][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:34.253][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:34.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.403][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[2025-01-28 03:56:34.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.449][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.TRACE[2025-01-28 03:56:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.655][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[2025-01-28 03:56:34.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.919][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[2025-01-28 03:56:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:34.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:34.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:34.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:34.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:34.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:34.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:34.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:34.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:34.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:34.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:34.996][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:35.001][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:35.003][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-28 03:56:35.004][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:35.006][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-28 03:56:35.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.024][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.TRACE[2025-01-28 03:56:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.067][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.TRACE[2025-01-28 03:56:35.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.117][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.TRACE[2025-01-28 03:56:35.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.380][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[2025-01-28 03:56:35.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.539][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.TRACE[2025-01-28 03:56:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.642][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.TRACE[2025-01-28 03:56:35.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:35.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.787][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:35.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:35.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:35.803][biodb::testThat]
biodb.INFO [2025-01-28 03:56:35.805][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-01-28 03:56:35.806][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:35.808][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:35.812][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-28 03:56:35.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-28 03:56:35.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:35.863][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:35.867][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:35.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-28 03:56:35.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:35.873][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-28 03:56:35.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.910][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:35.914][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:35.916][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-28 03:56:35.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:35.920][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-28 03:56:35.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:35.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:35.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:35.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:35.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:35.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:35.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:35.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:35.989][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:35.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:35.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:35.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:36.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.020][private$selectFields]
biodb.TRACE[2025-01-28 03:56:36.021][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:36.022][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:36.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.035][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.044][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.045][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:36.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.078][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-28 03:56:36.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:36.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.109][private$selectFields]
biodb.TRACE[2025-01-28 03:56:36.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:36.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:36.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.119][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.125][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.127][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.137][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.167][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:36.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.185][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.TRACE[2025-01-28 03:56:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.200][private$selectFields]
biodb.TRACE[2025-01-28 03:56:36.201][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:36.203][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:36.204][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.210][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:36.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.226][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.228][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:36.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.272][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-28 03:56:36.274][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:36.275][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:36.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:36.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:36.567][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:36.576][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:36.582][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-28 03:56:36.588][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:36.597][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-28 03:56:36.602][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:36.611][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:36.617][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-28 03:56:36.619][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:36.633][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-28 03:56:36.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:36.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:36.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:36.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:36.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:36.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:36.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:36.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:36.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:36.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:36.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:36.911][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:36.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:36.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:36.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.053][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.054][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.072][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.087][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.093][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.094][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.102][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.110][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.173][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-28 03:56:37.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.282][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.284][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.285][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.292][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.315][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.321][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.341][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:37.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.357][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[2025-01-28 03:56:37.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.375][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.382][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.387][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.390][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.393][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.394][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.396][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.401][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.403][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.422][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-28 03:56:37.424][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:37.425][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:37.446][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:37.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:37.469][biodb::testThat]
biodb.INFO [2025-01-28 03:56:37.470][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-01-28 03:56:37.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:37.478][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:37.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-28 03:56:37.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-28 03:56:37.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:37.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.590][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[2025-01-28 03:56:37.599][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:37.608][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:37.610][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-28 03:56:37.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:37.614][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-28 03:56:37.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:37.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:37.655][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:37.657][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-28 03:56:37.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:37.661][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-28 03:56:37.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:37.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:37.732][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:37.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.761][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.763][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.764][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.766][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.781][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.782][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.788][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.789][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.818][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-28 03:56:37.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.850][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.860][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.866][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.869][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.875][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.876][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.895][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:37.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:37.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:37.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:37.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:37.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:37.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:37.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:37.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.929][private$selectFields]
biodb.TRACE[2025-01-28 03:56:37.930][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:37.932][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:37.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.948][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.962][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:37.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.977][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:37.984][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:37.986][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:37.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:37.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.028][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-28 03:56:38.034][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:38.035][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:38.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:38.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:38.163][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:38.175][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:38.178][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-28 03:56:38.180][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:38.182][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-28 03:56:38.187][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:38.204][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:38.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-28 03:56:38.216][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:38.219][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-28 03:56:38.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.259][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.TRACE[2025-01-28 03:56:38.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:38.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.336][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.TRACE[2025-01-28 03:56:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:38.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:38.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:38.457][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:38.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:38.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.523][private$selectFields]
biodb.TRACE[2025-01-28 03:56:38.529][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:38.531][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:38.532][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.547][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.562][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.569][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.577][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.580][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.585][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:38.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.627][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-28 03:56:38.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:38.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.698][private$selectFields]
biodb.TRACE[2025-01-28 03:56:38.699][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:38.705][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:38.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.721][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.731][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.754][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.756][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:38.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.797][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:38.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:38.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:38.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:38.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:38.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:38.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:38.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:38.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.879][private$selectFields]
biodb.TRACE[2025-01-28 03:56:38.885][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:38.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:38.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.903][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.924][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:38.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.935][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.941][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:38.983][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-28 03:56:38.988][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:38.990][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:39.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:39.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:39.039][biodb::testThat]
biodb.INFO [2025-01-28 03:56:39.045][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-01-28 03:56:39.046][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:39.048][biodb::testThat]
biodb.TRACE[2025-01-28 03:56:39.061][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-28 03:56:39.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-28 03:56:39.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:39.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:39.182][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:39.191][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:39.197][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-28 03:56:39.199][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:39.206][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-28 03:56:39.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:39.294][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:39.303][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:39.310][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-28 03:56:39.312][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:39.318][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-28 03:56:39.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.357][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[2025-01-28 03:56:39.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:39.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:39.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:39.484][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:39.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:39.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.557][private$selectFields]
biodb.TRACE[2025-01-28 03:56:39.559][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:39.560][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:39.566][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.576][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.590][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.597][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.607][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.613][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:39.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.654][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-28 03:56:39.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:39.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.717][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.719][private$selectFields]
biodb.TRACE[2025-01-28 03:56:39.724][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:39.726][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:39.727][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.742][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.752][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.759][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.775][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:39.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.820][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:39.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:39.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:39.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:39.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:39.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:39.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:39.852][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.TRACE[2025-01-28 03:56:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.884][private$selectFields]
biodb.TRACE[2025-01-28 03:56:39.886][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:39.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:39.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.904][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.918][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.925][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:39.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.941][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:39.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:39.982][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-28 03:56:39.984][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:39.989][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:40.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:40.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:40.159][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:40.168][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:40.174][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-28 03:56:40.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:40.182][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-28 03:56:40.190][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:40.199][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:40.205][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-28 03:56:40.207][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:40.213][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-28 03:56:40.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:40.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:40.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:40.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:40.437][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-28 03:56:40.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.502][private$selectFields]
biodb.TRACE[2025-01-28 03:56:40.504][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:40.509][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:40.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.518][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.525][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.536][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.543][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.557][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.559][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.600][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-28 03:56:40.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.663][private$selectFields]
biodb.TRACE[2025-01-28 03:56:40.669][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:40.670][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:40.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.687][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.702][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.709][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.725][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:40.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.767][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-28 03:56:40.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:40.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:40.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:40.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:40.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:40.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:40.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.831][private$selectFields]
biodb.TRACE[2025-01-28 03:56:40.837][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-28 03:56:40.839][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-28 03:56:40.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.855][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.869][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.877][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-28 03:56:40.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.887][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.893][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-28 03:56:40.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:40.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:40.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:40.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-28 03:56:40.940][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-28 03:56:40.942][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-28 03:56:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:41.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-28 03:56:41.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:41.022][biodb::testThat]
biodb.INFO [2025-01-28 03:56:41.023][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-01-28 03:56:41.029][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:41.031][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:41.038][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-28 03:56:41.039][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:41.046][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-28 03:56:41.048][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:41.061][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-01-28 03:56:41.063][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:41.064][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:41.066][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:41.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:41.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:41.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:41.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:41.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:41.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:41.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:41.107][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.113][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.116][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:41.155][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:41.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.162][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.168][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:41.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:41.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:41.185][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:41.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.193][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:41.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:41.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:41.211][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:41.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.218][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.224][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:41.226][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:41.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.233][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.235][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:41.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:41.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.244][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.250][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:41.252][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:41.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.259][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:41.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:41.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:41.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:41.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.289][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:41.420][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-01-28 03:56:41.422][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-28 03:56:41.446][biodb::testThat]
biodb.INFO [2025-01-28 03:56:41.447][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-28 03:56:41.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:41.454][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:41.501][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-01-28 03:56:41.503][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-01-28 03:56:41.508][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-01-28 03:56:41.511][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-01-28 03:56:41.517][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-01-28 03:56:41.549][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-01-28 03:56:41.551][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:41.557][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-01-28 03:56:41.559][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:41.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:41.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:41.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:41.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:41.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:41.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:41.597][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[2025-01-28 03:56:41.605][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.606][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.614][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.631][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:41.637][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:41.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.645][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:41.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:41.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.656][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.662][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:41.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:41.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.671][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.677][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:41.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:41.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.688][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:41.694][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:41.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.701][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.703][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:41.709][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:41.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.716][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.718][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:41.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:41.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.734][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:41.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:41.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.743][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.749][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:41.751][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:41.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.758][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.764][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:41.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:41.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:41.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:41.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:41.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:41.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:41.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:41.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:41.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:41.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:41.904][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:41.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:41.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.933][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:41.935][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:41.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.942][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:41.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.959][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:41.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:41.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.968][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:41.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:41.989][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:41.991][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:41.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:41.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:42.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:42.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.015][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.021][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.024][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.044][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.055][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.070][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:42.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:42.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.079][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.085][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:42.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:42.127][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:42.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.134][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:42.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:42.158][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:42.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.167][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:42.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:42.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.182][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:42.183][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:42.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.191][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:42.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:42.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:42.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:42.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:42.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:42.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:42.341][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.TRACE[2025-01-28 03:56:42.365][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.375][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.396][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:42.398][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:42.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.406][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.408][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:42.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.423][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:42.429][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:42.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.437][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:42.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:42.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:42.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.463][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:42.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.484][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.486][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.494][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:42.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.511][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.517][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.520][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.526][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:42.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.541][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:42.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:42.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.550][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.552][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:42.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.580][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:42.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.598][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:42.599][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:42.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.619][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:42.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.631][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:42.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:42.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.645][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.647][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:42.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:42.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:42.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:42.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.671][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.677][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:42.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:42.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:42.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:42.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:42.911][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-01-28 03:56:42.917][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-28 03:56:42.918][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-01-28 03:56:42.959][biodb::testThat]
biodb.INFO [2025-01-28 03:56:42.964][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-01-28 03:56:42.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:42.968][biodb::testThat]
biodb.INFO [2025-01-28 03:56:43.046][biodb::testThat]
biodb.INFO [2025-01-28 03:56:43.048][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-01-28 03:56:43.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:43.055][biodb::testThat]
biodb.INFO [2025-01-28 03:56:43.085][biodb::testThat]
biodb.INFO [2025-01-28 03:56:43.087][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-01-28 03:56:43.093][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:43.094][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:43.102][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:43.111][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:43.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-01-28 03:56:43.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:43.133][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-01-28 03:56:43.189][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:43.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:43.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:43.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:43.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:43.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:43.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:43.215][ef$get] fields variable is a list.
biodb.INFO [2025-01-28 03:56:43.222][biodb::testThat]
biodb.INFO [2025-01-28 03:56:43.224][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-01-28 03:56:43.230][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:43.232][biodb::testThat]
biodb.ERROR[2025-01-28 03:56:43.285][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-01-28 03:56:43.342][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-01-28 03:56:43.384][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-28 03:56:43.387][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-28 03:56:43.397][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-28 03:56:43.398][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-28 03:56:43.400][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:43.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:43.407][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:43.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:43.415][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-28 03:56:43.454][biodb::testContext]
biodb.INFO [2025-01-28 03:56:43.455][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:43.465][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-01-28 03:56:43.467][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:43.473][biodb::testContext]
biodb.INFO [2025-01-28 03:56:43.476][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:43.483][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:43.496][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:43.498][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-28 03:56:43.500][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.514][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-28 03:56:43.516][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.530][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-28 03:56:43.532][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.546][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-28 03:56:43.548][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-28 03:56:43.554][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-28 03:56:43.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.563][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[2025-01-28 03:56:43.564][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-28 03:56:43.570][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-28 03:56:43.571][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.586][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-28 03:56:43.587][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-28 03:56:43.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.635][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-28 03:56:43.640][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-28 03:56:43.642][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-28 03:56:43.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.656][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-28 03:56:43.658][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.668][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-28 03:56:43.674][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-28 03:56:43.675][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-28 03:56:43.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.689][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:43.691][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-28 03:56:43.697][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-28 03:56:43.698][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-28 03:56:43.700][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-28 03:56:43.706][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-28 03:56:43.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.714][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[2025-01-28 03:56:43.715][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-28 03:56:43.721][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-28 03:56:43.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.731][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-28 03:56:43.737][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-28 03:56:43.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.747][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-28 03:56:43.753][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-28 03:56:43.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.763][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-28 03:56:43.768][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-28 03:56:43.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.778][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-28 03:56:43.784][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-28 03:56:43.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.794][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:43.796][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-28 03:56:43.813][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-28 03:56:43.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.817][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[2025-01-28 03:56:43.819][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-28 03:56:43.824][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-28 03:56:43.826][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-28 03:56:43.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:43.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:43.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:43.840][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-28 03:56:43.843][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:43.849][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-28 03:56:43.851][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:43.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.860][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:43.866][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:43.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:43.873][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:43.875][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:43.880][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.882][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-28 03:56:43.884][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:43.890][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:43.891][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.897][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:43.897][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:43.897][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:43.897][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:43.897][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:43.899][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:43.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:43.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:43.908][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:43.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:43.915][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:43.921][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:43.922][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:43.924][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:43.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:43.931][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:43.937][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:43.939][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-28 03:56:43.946][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:43.948][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:43.954][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.956][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:43.962][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.964][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:43.969][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:43.971][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:43.977][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:43.979][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:43.985][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:43.987][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-28 03:56:43.992][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:43.994][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:43.996][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.002][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:44.002][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:44.002][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:44.002][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:44.002][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:44.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:44.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.011][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.017][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:44.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.028][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.034][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:44.036][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:44.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.043][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.050][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-28 03:56:44.057][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.059][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-28 03:56:44.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:44.073][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.074][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.080][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.082][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.084][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:44.090][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:44.092][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.097][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-28 03:56:44.099][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:44.105][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.107][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.112][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.114][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:44.116][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.123][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:44.129][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.136][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.138][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.140][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:44.145][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:44.147][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.153][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.155][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-28 03:56:44.162][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.164][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:44.170][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.171][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:44.177][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.179][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.185][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.187][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.192][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:44.194][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:44.196][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.202][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-28 03:56:44.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:44.209][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:44.217][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.218][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:44.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.227][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:44.233][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:44.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:44.240][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:44.242][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:44.249][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:44.251][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:44.257][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:44.259][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:44.265][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.298][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[2025-01-28 03:56:44.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.314][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[2025-01-28 03:56:44.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.378][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[2025-01-28 03:56:44.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.527][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-28 03:56:44.534][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-28 03:56:44.536][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-28 03:56:44.543][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-28 03:56:44.549][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:44.551][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-28 03:56:44.558][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:44.564][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:44.567][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-28 03:56:44.573][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-28 03:56:44.575][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:44.582][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-28 03:56:44.588][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:44.591][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:44.597][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-28 03:56:44.599][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-28 03:56:44.606][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-28 03:56:44.612][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-28 03:56:44.615][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:44.621][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-28 03:56:44.624][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-28 03:56:44.631][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-28 03:56:44.637][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-28 03:56:44.640][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-28 03:56:44.646][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-28 03:56:44.653][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-28 03:56:44.655][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-28 03:56:44.662][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-28 03:56:44.668][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-28 03:56:44.671][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-28 03:56:44.677][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-28 03:56:44.680][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-28 03:56:44.686][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-28 03:56:44.693][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-28 03:56:44.695][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-28 03:56:44.701][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-28 03:56:44.704][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-28 03:56:44.710][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-28 03:56:44.717][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-28 03:56:44.719][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-28 03:56:44.726][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-28 03:56:44.728][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-28 03:56:44.735][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-28 03:56:44.741][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-28 03:56:44.743][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-28 03:56:44.750][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-28 03:56:44.756][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-28 03:56:44.759][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-28 03:56:44.765][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-28 03:56:44.768][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-28 03:56:44.774][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-28 03:56:44.781][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-28 03:56:44.783][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-28 03:56:44.807][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-28 03:56:44.813][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-28 03:56:44.816][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-28 03:56:44.822][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-28 03:56:44.829][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-28 03:56:44.831][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-28 03:56:44.838][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-28 03:56:44.844][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-28 03:56:44.847][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-28 03:56:44.853][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-28 03:56:44.855][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-28 03:56:44.862][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-28 03:56:44.864][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-28 03:56:44.870][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:44.877][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:44.879][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-28 03:56:44.886][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-28 03:56:44.888][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-28 03:56:44.894][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-28 03:56:44.901][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-28 03:56:44.903][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-28 03:56:44.909][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-28 03:56:44.912][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-28 03:56:44.918][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-28 03:56:44.925][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-28 03:56:44.927][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-28 03:56:44.934][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-28 03:56:44.941][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-28 03:56:44.943][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-28 03:56:44.949][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-28 03:56:44.956][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-28 03:56:44.959][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:44.965][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:44.966][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.973][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:44.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:44.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:44.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:44.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:44.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:44.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:44.998][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[2025-01-28 03:56:44.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.079][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[2025-01-28 03:56:45.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.101][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[2025-01-28 03:56:45.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.124][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[2025-01-28 03:56:45.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.207][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.DEBUG[2025-01-28 03:56:45.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:45.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.341][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[2025-01-28 03:56:45.343][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:45.350][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-28 03:56:45.357][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:45.359][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-28 03:56:45.365][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:45.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:45.372][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:45.374][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:45.380][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:45.382][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-28 03:56:45.384][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-28 03:56:45.390][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:45.392][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:45.397][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-28 03:56:45.399][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-28 03:56:45.405][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-28 03:56:45.407][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:45.413][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:45.413][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:45.413][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:45.414][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-28 03:56:45.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:45.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:45.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:45.429][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:45.431][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:45.437][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:45.438][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-28 03:56:45.438][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-28 03:56:45.440][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:45.446][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:45.447][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:45.453][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-28 03:56:45.453][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-28 03:56:45.455][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:45.462][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:45.469][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-28 03:56:45.471][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:45.478][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:45.485][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:45.495][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-28 03:56:45.505][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-28 03:56:45.506][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-28 03:56:45.509][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-28 03:56:45.511][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:45.516][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:45.518][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-28 03:56:45.528][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-28 03:56:45.531][biodb::testThat]
biodb.INFO [2025-01-28 03:56:45.532][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-01-28 03:56:45.533][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:45.535][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:45.553][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-28 03:56:45.563][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:45.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-28 03:56:45.571][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:45.578][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-28 03:56:45.588][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:45.601][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:45.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-28 03:56:45.610][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:45.616][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-28 03:56:45.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.654][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[2025-01-28 03:56:45.661][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:45.670][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:45.672][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-28 03:56:45.678][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:45.689][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-28 03:56:45.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.800][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[2025-01-28 03:56:45.815][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:45.828][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:45.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-28 03:56:45.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:45.839][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-28 03:56:45.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.880][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:45.893][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:45.895][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-28 03:56:45.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:45.903][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-28 03:56:45.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:45.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:45.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:45.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:45.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:45.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:45.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:45.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.006][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:46.015][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:46.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-28 03:56:46.024][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:46.030][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-28 03:56:46.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:46.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.072][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:46.085][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:46.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-28 03:56:46.093][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:46.095][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-28 03:56:46.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:46.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.135][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:46.148][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:46.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-01-28 03:56:46.157][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:46.169][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-01-28 03:56:46.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:46.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-28 03:56:46.226][biodb::testThat]
biodb.INFO [2025-01-28 03:56:46.227][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-01-28 03:56:46.233][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:46.235][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:46.244][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:46.258][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:46.260][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-01-28 03:56:46.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:46.277][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-01-28 03:56:46.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:46.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.322][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:46.331][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:46.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-01-28 03:56:46.340][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:46.364][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-01-28 03:56:46.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:46.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.403][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.INFO [2025-01-28 03:56:46.418][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-28 03:56:46.425][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-28 03:56:46.426][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-28 03:56:46.428][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-28 03:56:46.433][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:46.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:46.436][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:46.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:46.443][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-28 03:56:46.466][biodb::testContext]
biodb.INFO [2025-01-28 03:56:46.467][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:46.469][biodb::testContext] Test context - Test web services
biodb.INFO [2025-01-28 03:56:46.470][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:46.471][biodb::testContext]
biodb.INFO [2025-01-28 03:56:46.478][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:46.485][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:46.494][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:46.496][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-28 03:56:46.502][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.512][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-28 03:56:46.518][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.528][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-28 03:56:46.534][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.544][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-28 03:56:46.549][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-28 03:56:46.551][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-28 03:56:46.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.560][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[2025-01-28 03:56:46.566][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-28 03:56:46.567][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-28 03:56:46.573][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.583][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-28 03:56:46.589][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-28 03:56:46.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.599][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-28 03:56:46.605][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-28 03:56:46.607][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-28 03:56:46.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.621][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-28 03:56:46.623][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.636][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-28 03:56:46.638][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-28 03:56:46.640][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-28 03:56:46.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.654][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:46.655][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-28 03:56:46.661][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-28 03:56:46.663][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-28 03:56:46.668][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-28 03:56:46.670][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-28 03:56:46.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.680][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-28 03:56:46.686][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-28 03:56:46.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.696][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-28 03:56:46.702][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-28 03:56:46.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.711][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-28 03:56:46.717][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-28 03:56:46.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.727][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-28 03:56:46.733][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-28 03:56:46.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.743][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-28 03:56:46.752][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-28 03:56:46.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.758][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:46.759][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-28 03:56:46.777][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-28 03:56:46.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.783][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-28 03:56:46.784][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-28 03:56:46.790][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-28 03:56:46.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:46.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:46.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:46.800][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-28 03:56:46.807][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.813][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-28 03:56:46.814][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.816][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:46.822][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.823][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.831][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.832][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:46.838][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:46.839][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.845][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-28 03:56:46.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:46.852][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.854][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.855][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:46.855][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:46.855][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:46.855][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:46.855][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:46.861][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:46.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:46.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:46.870][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:46.871][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:46.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:46.878][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.880][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.885][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:46.887][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:46.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.894][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.900][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-28 03:56:46.903][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.909][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:46.911][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.912][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:46.918][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.920][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.925][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.927][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.932][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:46.934][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:46.936][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.941][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-28 03:56:46.943][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:46.948][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.950][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:46.952][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:46.952][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:46.952][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:46.952][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:46.952][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:46.957][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:46.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:46.960][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:46.966][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:46.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:46.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:46.974][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:46.976][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.981][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:46.983][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:46.988][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:46.990][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:46.992][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-28 03:56:46.999][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.004][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-28 03:56:47.006][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.007][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:47.013][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.015][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.020][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.022][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.023][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:47.029][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:47.031][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.037][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-28 03:56:47.038][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:47.040][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.045][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.047][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.053][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:47.054][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:47.055][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:47.061][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:47.063][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:47.064][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:47.070][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.071][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.077][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:47.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:47.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.085][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.087][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-28 03:56:47.094][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.095][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:47.101][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.103][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:47.104][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.110][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.111][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.117][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.119][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:47.124][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:47.126][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.128][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-28 03:56:47.134][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:47.135][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.141][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:47.143][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.149][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:47.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:47.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:47.157][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:47.159][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:47.160][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:47.183][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:47.189][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.191][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:47.192][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:47.198][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:47.199][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:47.205][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:47.207][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.255][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[2025-01-28 03:56:47.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.341][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[2025-01-28 03:56:47.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.440][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.DEBUG[2025-01-28 03:56:47.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.461][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-28 03:56:47.463][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-28 03:56:47.470][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-28 03:56:47.476][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-28 03:56:47.479][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:47.485][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-28 03:56:47.488][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:47.494][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:47.501][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-28 03:56:47.503][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-28 03:56:47.509][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:47.512][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-28 03:56:47.518][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:47.524][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:47.527][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-28 03:56:47.533][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-28 03:56:47.536][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-28 03:56:47.542][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-28 03:56:47.548][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:47.551][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-28 03:56:47.557][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-28 03:56:47.559][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-28 03:56:47.565][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-28 03:56:47.568][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-28 03:56:47.574][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-28 03:56:47.580][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-28 03:56:47.583][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-28 03:56:47.589][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-28 03:56:47.591][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-28 03:56:47.597][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-28 03:56:47.600][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-28 03:56:47.606][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-28 03:56:47.612][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-28 03:56:47.615][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-28 03:56:47.621][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-28 03:56:47.623][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-28 03:56:47.630][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-28 03:56:47.632][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-28 03:56:47.638][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-28 03:56:47.644][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-28 03:56:47.647][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-28 03:56:47.653][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-28 03:56:47.655][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-28 03:56:47.661][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-28 03:56:47.664][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-28 03:56:47.670][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-28 03:56:47.676][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-28 03:56:47.679][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-28 03:56:47.685][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-28 03:56:47.687][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-28 03:56:47.693][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-28 03:56:47.696][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-28 03:56:47.702][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-28 03:56:47.704][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-28 03:56:47.710][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-28 03:56:47.716][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-28 03:56:47.719][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-28 03:56:47.725][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-28 03:56:47.727][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-28 03:56:47.733][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-28 03:56:47.736][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-28 03:56:47.742][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-28 03:56:47.748][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-28 03:56:47.751][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-28 03:56:47.757][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-28 03:56:47.759][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-28 03:56:47.766][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:47.772][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:47.775][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-28 03:56:47.781][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-28 03:56:47.783][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-28 03:56:47.790][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-28 03:56:47.796][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-28 03:56:47.799][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-28 03:56:47.805][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-28 03:56:47.807][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-28 03:56:47.814][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-28 03:56:47.820][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-28 03:56:47.823][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-28 03:56:47.829][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-28 03:56:47.831][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-28 03:56:47.838][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-28 03:56:47.844][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-28 03:56:47.847][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-28 03:56:47.853][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:47.854][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:47.856][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.863][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:47.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:47.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:47.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:47.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:47.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:47.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:47.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.030][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[2025-01-28 03:56:48.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.207][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.DEBUG[2025-01-28 03:56:48.213][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:48.216][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-28 03:56:48.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:48.228][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.230][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:48.238][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.239][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.245][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.247][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-28 03:56:48.253][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-28 03:56:48.272][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:48.278][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.279][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-28 03:56:48.285][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-28 03:56:48.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-28 03:56:48.288][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:48.294][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:48.294][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:48.294][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:48.295][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-28 03:56:48.301][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:48.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:48.304][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:48.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:48.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:48.316][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.318][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-28 03:56:48.318][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-28 03:56:48.319][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:48.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:48.326][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.328][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-28 03:56:48.328][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-28 03:56:48.334][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:48.341][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:48.343][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-28 03:56:48.350][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:48.356][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:48.359][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:48.372][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-28 03:56:48.374][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-28 03:56:48.376][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-28 03:56:48.382][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-28 03:56:48.384][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:48.390][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:48.392][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-28 03:56:48.397][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-28 03:56:48.399][biodb::testThat]
biodb.INFO [2025-01-28 03:56:48.405][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-01-28 03:56:48.407][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:48.412][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:48.421][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-28 03:56:48.431][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:48.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-28 03:56:48.439][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:48.445][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-28 03:56:48.455][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:48.464][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:48.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-01-28 03:56:48.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:48.485][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-01-28 03:56:48.504][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-28 03:56:48.510][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-28 03:56:48.512][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-28 03:56:48.517][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-28 03:56:48.519][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:48.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:48.526][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:48.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:48.533][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-28 03:56:48.550][biodb::testContext]
biodb.INFO [2025-01-28 03:56:48.552][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:48.553][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-01-28 03:56:48.555][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-28 03:56:48.560][biodb::testContext]
biodb.INFO [2025-01-28 03:56:48.563][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:48.570][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:48.579][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:48.585][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-28 03:56:48.587][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.601][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-28 03:56:48.602][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.611][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[2025-01-28 03:56:48.616][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-28 03:56:48.618][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.628][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-28 03:56:48.634][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-28 03:56:48.635][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-28 03:56:48.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.649][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-28 03:56:48.651][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-28 03:56:48.657][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.667][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-28 03:56:48.673][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-28 03:56:48.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.683][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-28 03:56:48.689][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-28 03:56:48.690][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-28 03:56:48.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.705][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-28 03:56:48.707][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.722][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-28 03:56:48.723][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-28 03:56:48.729][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-28 03:56:48.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.739][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:48.745][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-28 03:56:48.747][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-28 03:56:48.753][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-28 03:56:48.755][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-28 03:56:48.760][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-28 03:56:48.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.771][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-28 03:56:48.777][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-28 03:56:48.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.787][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-28 03:56:48.793][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-28 03:56:48.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.803][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-28 03:56:48.809][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-28 03:56:48.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.819][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-28 03:56:48.825][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-28 03:56:48.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.836][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-28 03:56:48.841][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-28 03:56:48.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.852][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-28 03:56:48.858][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-28 03:56:48.873][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-28 03:56:48.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.884][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-28 03:56:48.889][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-28 03:56:48.891][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-28 03:56:48.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:48.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:48.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:48.906][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-28 03:56:48.913][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:48.915][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-28 03:56:48.920][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.922][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:48.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.930][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.931][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:48.937][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.939][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:48.945][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:48.946][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.952][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-28 03:56:48.954][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:48.956][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:48.961][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:48.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:48.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:48.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:48.963][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:48.963][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:48.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:48.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:48.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:48.978][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:48.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:48.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:48.986][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:48.992][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:48.994][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:48.995][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:49.001][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.003][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.009][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-28 03:56:49.012][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.018][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:49.019][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.025][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:49.027][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.032][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.034][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.036][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.042][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:49.043][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:49.049][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.051][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-28 03:56:49.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:49.058][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.060][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.065][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:49.065][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:49.065][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:49.065][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-28 03:56:49.065][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-28 03:56:49.067][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:49.073][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.074][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.076][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:49.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.089][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.091][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.096][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:49.098][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:49.099][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.105][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.107][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-28 03:56:49.114][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.116][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-28 03:56:49.122][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.123][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:49.129][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.131][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.137][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.138][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.140][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-28 03:56:49.146][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:49.148][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.153][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-28 03:56:49.155][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:49.161][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.162][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.164][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.170][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:49.171][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.179][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:49.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.188][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.193][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.195][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:49.201][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:49.202][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.204][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.210][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-28 03:56:49.217][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.219][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-28 03:56:49.225][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:49.228][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.234][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.236][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.241][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.243][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-28 03:56:49.249][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:49.251][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.256][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-28 03:56:49.258][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:49.260][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.266][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:49.267][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.273][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-28 03:56:49.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.280][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.282][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:49.284][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:49.289][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:49.291][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:49.297][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.299][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:49.304][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:49.306][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:49.308][self$setPropertyValue]
biodb.DEBUG[2025-01-28 03:56:49.314][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:49.316][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.322][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[2025-01-28 03:56:49.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.530][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[2025-01-28 03:56:49.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.545][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[2025-01-28 03:56:49.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:49.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:49.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:49.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:49.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:49.609][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-28 03:56:49.611][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-28 03:56:49.618][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-28 03:56:49.624][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-28 03:56:49.627][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:49.633][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-28 03:56:49.635][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:49.642][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:49.648][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-28 03:56:49.651][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-28 03:56:49.657][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:49.660][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-28 03:56:49.666][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-28 03:56:49.673][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-28 03:56:49.675][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-28 03:56:49.682][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-28 03:56:49.688][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-28 03:56:49.691][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-28 03:56:49.697][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:49.700][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-28 03:56:49.706][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-28 03:56:49.713][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-28 03:56:49.715][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-28 03:56:49.722][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-28 03:56:49.729][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-28 03:56:49.731][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-28 03:56:49.738][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-28 03:56:49.745][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-28 03:56:49.748][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-28 03:56:49.754][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-28 03:56:49.761][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-28 03:56:49.764][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-28 03:56:49.771][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-28 03:56:49.777][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-28 03:56:49.780][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-28 03:56:49.787][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-28 03:56:49.793][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-28 03:56:49.796][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-28 03:56:49.803][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-28 03:56:49.809][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-28 03:56:49.812][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-28 03:56:49.819][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-28 03:56:49.825][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-28 03:56:49.832][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-28 03:56:49.835][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-28 03:56:49.842][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-28 03:56:49.849][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-28 03:56:49.852][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-28 03:56:49.858][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-28 03:56:49.865][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-28 03:56:49.868][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-28 03:56:49.875][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-28 03:56:49.882][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-28 03:56:49.889][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-28 03:56:49.891][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-28 03:56:49.898][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-28 03:56:49.905][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-28 03:56:49.912][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-28 03:56:49.915][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-28 03:56:49.922][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-28 03:56:49.929][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-28 03:56:49.932][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-28 03:56:49.938][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-28 03:56:49.945][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-28 03:56:49.948][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-28 03:56:49.955][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-28 03:56:49.961][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:49.964][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:49.970][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-28 03:56:49.976][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-28 03:56:49.979][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-28 03:56:49.985][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-28 03:56:49.988][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-28 03:56:49.994][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-28 03:56:50.001][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-28 03:56:50.003][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-28 03:56:50.010][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-28 03:56:50.017][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-28 03:56:50.019][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-28 03:56:50.026][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-28 03:56:50.032][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-28 03:56:50.035][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-28 03:56:50.041][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-28 03:56:50.044][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-28 03:56:50.051][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-01-28 03:56:50.057][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-28 03:56:50.058][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.065][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.067][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[2025-01-28 03:56:50.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.249][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[2025-01-28 03:56:50.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-28 03:56:50.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-28 03:56:50.466][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-28 03:56:50.472][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-28 03:56:50.476][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:50.481][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-28 03:56:50.483][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:50.489][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-28 03:56:50.490][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:50.492][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-28 03:56:50.498][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:50.499][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-28 03:56:50.505][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-28 03:56:50.507][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-28 03:56:50.512][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:50.514][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-28 03:56:50.516][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-28 03:56:50.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-28 03:56:50.523][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-28 03:56:50.529][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-28 03:56:50.529][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-28 03:56:50.529][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-28 03:56:50.531][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-28 03:56:50.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:50.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:50.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-28 03:56:50.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-28 03:56:50.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-28 03:56:50.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-28 03:56:50.554][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-28 03:56:50.554][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-28 03:56:50.555][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-28 03:56:50.561][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-28 03:56:50.563][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-28 03:56:50.568][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-28 03:56:50.568][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-28 03:56:50.571][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-28 03:56:50.577][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-28 03:56:50.584][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-28 03:56:50.586][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-28 03:56:50.593][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-28 03:56:50.596][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-28 03:56:50.609][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-28 03:56:50.611][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-28 03:56:50.617][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-28 03:56:50.620][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-28 03:56:50.626][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:50.628][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-28 03:56:50.646][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-28 03:56:50.647][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-28 03:56:50.649][biodb::testThat]
biodb.INFO [2025-01-28 03:56:50.651][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-01-28 03:56:50.653][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-28 03:56:50.654][biodb::testThat]
biodb.DEBUG[2025-01-28 03:56:50.659][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-28 03:56:50.664][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:50.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-28 03:56:50.668][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:50.670][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-28 03:56:50.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-28 03:56:50.679][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-28 03:56:50.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-01-28 03:56:50.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:50.685][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-01-28 03:56:50.691][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-01-28 03:56:50.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-28 03:56:50.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-01-28 03:56:50.697][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-28 03:56:50.705][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-01-28 03:56:50.707][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-28 03:56:50.709][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-28 03:56:50.711][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-28 03:56:50.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-28 03:56:50.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:50.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:50.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:50.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:50.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:50.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-28 03:56:50.759][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:50.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:50.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:50.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:50.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.790][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:50.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:50.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.798][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.805][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-28 03:56:50.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-28 03:56:50.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.820][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:50.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:50.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.829][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-28 03:56:50.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-28 03:56:50.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-28 03:56:50.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-28 03:56:50.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-28 03:56:50.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-28 03:56:50.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.872][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:50.885][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:50.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.896][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:50.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-28 03:56:50.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:50.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:50.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.925][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.927][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-28 03:56:50.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-28 03:56:50.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:50.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:50.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:50.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-28 03:56:50.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.975][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:50.981][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:50.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:50.988][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:50.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-28 03:56:50.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-28 03:56:51.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.007][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:51.013][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:51.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.024][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-28 03:56:51.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-28 03:56:51.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.039][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:51.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:51.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.055][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-28 03:56:51.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-28 03:56:51.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-28 03:56:51.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-28 03:56:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-28 03:56:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-28 03:56:51.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-28 03:56:51.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-28 03:56:51.214][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-01-28 03:56:51.224][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-28 03:56:51.230][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-28 03:56:51.232][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-28 03:56:51.238][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-28 03:56:51.239][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-28 03:56:51.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-28 03:56:51.246][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-28 03:56:51.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-28 03:56:51.253][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-28 03:56:51.254][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
>
> proc.time()
user system elapsed
23.825 0.909 47.913
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.924 | 0.078 | 1.010 | |
| ChebiEntry | 0.269 | 0.004 | 0.273 | |