Pierrick Roger
| Snapshot Date: 2025-03-06 13:00 -0500 (Thu, 06 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_20 |
| git_last_commit: e6b963e |
| git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-03-10 12:05 -0400 (Mon, 10 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4670 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4355 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4446 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4439 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4306 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / 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. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz |
| StartedAt: 2025-03-06 20:41:57 -0500 (Thu, 06 Mar 2025) |
| EndedAt: 2025-03-06 20:43:21 -0500 (Thu, 06 Mar 2025) |
| EllapsedTime: 84.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/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 version 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-03-06 20:42:38.434][biodb::testContext]
biodb.INFO [2025-03-06 20:42:38.436][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:38.437][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-06 20:42:38.438][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:38.439][biodb::testContext]
biodb.INFO [2025-03-06 20:42:38.446][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:38.448][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:38.456][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:38.457][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 20:42:38.458][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.462][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 20:42:38.482][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.486][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 20:42:38.487][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.491][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 20:42:38.492][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 20:42:38.493][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 20:42:38.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.496][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[2025-03-06 20:42:38.497][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 20:42:38.498][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 20:42:38.499][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.503][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 20:42:38.504][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 20:42:38.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.508][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 20:42:38.509][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 20:42:38.510][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 20:42:38.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.514][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 20:42:38.515][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.519][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 20:42:38.520][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 20:42:38.521][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 20:42:38.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.525][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:38.526][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 20:42:38.527][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 20:42:38.528][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 20:42:38.529][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 20:42:38.530][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 20:42:38.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.533][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[2025-03-06 20:42:38.534][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 20:42:38.535][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 20:42:38.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.539][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 20:42:38.540][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 20:42:38.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.544][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 20:42:38.545][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 20:42:38.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.549][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 20:42:38.550][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 20:42:38.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.554][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 20:42:38.555][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 20:42:38.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.559][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:38.560][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 20:42:38.565][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 20:42:38.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.569][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 20:42:38.570][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 20:42:38.571][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 20:42:38.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.578][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 20:42:38.615][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.639][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 20:42:38.641][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.642][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:38.643][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.643][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.644][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.645][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.646][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:38.647][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:38.648][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.649][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 20:42:38.658][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:38.659][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.660][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.661][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:38.661][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:38.661][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:38.661][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:38.661][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:38.663][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:38.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.666][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:38.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.669][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.670][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.672][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:38.673][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:38.674][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.675][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.677][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 20:42:38.679][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.680][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:38.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:38.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.684][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.685][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.686][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.687][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:38.688][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:38.689][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.690][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 20:42:38.691][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:38.692][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.693][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.694][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:38.694][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:38.694][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:38.694][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:38.694][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:38.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:38.696][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.697][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.698][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:38.699][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.700][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.701][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.702][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.703][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:38.704][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:38.705][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.706][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.707][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 20:42:38.709][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.710][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 20:42:38.711][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.712][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:38.713][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.714][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.715][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.716][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.717][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:38.718][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:38.719][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.720][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 20:42:38.721][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:38.722][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.723][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.724][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.725][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:38.726][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.728][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:38.729][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.730][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.731][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.732][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.733][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:38.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:38.735][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.736][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.737][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 20:42:38.739][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.740][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:38.741][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.742][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:38.743][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.744][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.745][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.747][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:38.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:38.749][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.750][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 20:42:38.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:38.752][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.753][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:38.754][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.755][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:38.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:38.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:38.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:38.761][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:38.762][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.763][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:38.763][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:38.764][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:38.765][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:38.770][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:38.771][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.777][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[2025-03-06 20:42:38.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.781][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[2025-03-06 20:42:38.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.795][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[2025-03-06 20:42:38.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.799][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.DEBUG[2025-03-06 20:42:38.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.804][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[2025-03-06 20:42:38.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.817][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[2025-03-06 20:42:38.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.849][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 20:42:38.855][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 20:42:38.856][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 20:42:38.858][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 20:42:38.859][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:38.860][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 20:42:38.862][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:38.863][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:38.864][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 20:42:38.866][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 20:42:38.867][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:38.869][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 20:42:38.870][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:38.871][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:38.873][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 20:42:38.874][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 20:42:38.876][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 20:42:38.877][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 20:42:38.878][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:38.880][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 20:42:38.881][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 20:42:38.882][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 20:42:38.884][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 20:42:38.885][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 20:42:38.887][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 20:42:38.888][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 20:42:38.890][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 20:42:38.891][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 20:42:38.892][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 20:42:38.894][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 20:42:38.895][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 20:42:38.897][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 20:42:38.898][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 20:42:38.899][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 20:42:38.915][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 20:42:38.916][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 20:42:38.918][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 20:42:38.919][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 20:42:38.921][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 20:42:38.922][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 20:42:38.923][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 20:42:38.925][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 20:42:38.926][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 20:42:38.928][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 20:42:38.929][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 20:42:38.931][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 20:42:38.932][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 20:42:38.934][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 20:42:38.935][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 20:42:38.936][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 20:42:38.938][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 20:42:38.939][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 20:42:38.940][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 20:42:38.942][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 20:42:38.943][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 20:42:38.944][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 20:42:38.946][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 20:42:38.947][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 20:42:38.948][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 20:42:38.949][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 20:42:38.951][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 20:42:38.952][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 20:42:38.953][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 20:42:38.954][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 20:42:38.956][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 20:42:38.957][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 20:42:38.958][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:38.960][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:38.961][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 20:42:38.962][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 20:42:38.963][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 20:42:38.965][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 20:42:38.966][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 20:42:38.967][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 20:42:38.968][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 20:42:38.970][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 20:42:38.971][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 20:42:38.972][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 20:42:38.974][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 20:42:38.975][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 20:42:38.976][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 20:42:38.978][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 20:42:38.979][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 20:42:38.985][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 20:42:38.986][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:38.989][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:38.990][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:38.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:38.992][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:38.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:38.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:38.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:38.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.008][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[2025-03-06 20:42:39.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.030][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[2025-03-06 20:42:39.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.053][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[2025-03-06 20:42:39.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:39.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:39.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.093][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[2025-03-06 20:42:39.094][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:39.104][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 20:42:39.106][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:39.107][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 20:42:39.108][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:39.108][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:39.109][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:39.110][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:39.111][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:39.112][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 20:42:39.113][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 20:42:39.114][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:39.115][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:39.116][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 20:42:39.117][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 20:42:39.118][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 20:42:39.119][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:39.119][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:39.119][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:39.119][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:39.120][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 20:42:39.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:39.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:39.123][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:39.124][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:39.125][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:39.126][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:39.127][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 20:42:39.127][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 20:42:39.127][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:39.128][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:39.129][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:39.130][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 20:42:39.130][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 20:42:39.136][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:39.138][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:39.139][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 20:42:39.140][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:39.142][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:39.143][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:39.171][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 20:42:39.173][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 20:42:39.177][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 20:42:39.181][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 20:42:39.185][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:39.186][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:39.187][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 20:42:39.188][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 20:42:39.197][biodb::testThat]
biodb.INFO [2025-03-06 20:42:39.198][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-03-06 20:42:39.199][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:39.200][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:39.239][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-06 20:42:39.241][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:39.244][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:39.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:39.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:39.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:39.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:39.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:39.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:39.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:39.279][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.282][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.299][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.300][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.302][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.335][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.341][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.342][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.348][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.348][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.350][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.359][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.363][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:39.364][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.366][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.374][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.387][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:39.388][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.389][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.394][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.395][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.397][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:39.482][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-06 20:42:39.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:39.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.655][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.657][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.712][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.735][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.750][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.757][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.761][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.762][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.764][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:39.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:39.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.788][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.789][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:39.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.814][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.817][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:39.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.836][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.840][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.841][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.843][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:39.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.867][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.868][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.869][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:39.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.881][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.885][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.894][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.896][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:39.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.907][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.916][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.924][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.925][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:39.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:39.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.953][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.978][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:39.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.990][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:39.991][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:39.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:39.993][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:39.998][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:39.999][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:40.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.001][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.006][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:40.007][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:40.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.013][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.014][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.021][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.022][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.024][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.029][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.030][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.032][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.036][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.038][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.045][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.046][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.047][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.052][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 20:42:40.053][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:40.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.055][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.059][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.060][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.062][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.066][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:40.067][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:40.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.069][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:40.076][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.077][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-06 20:42:40.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.079][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:40.092][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-06 20:42:40.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:40.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-06 20:42:40.105][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:40.106][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-06 20:42:40.107][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:40.134][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:40.135][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:40.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:40.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:40.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:40.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:40.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:40.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:40.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:40.148][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.151][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.171][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:40.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:40.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.174][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:40.180][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:40.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:40.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:40.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.187][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.188][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.194][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.197][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.202][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.203][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.205][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:40.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.210][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:40.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.212][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.218][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.225][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.226][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.232][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:40.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:40.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.235][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.236][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:40.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:40.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:40.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.243][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:40.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:40.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:40.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:40.284][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-06 20:42:40.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-06 20:42:40.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-06 20:42:40.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-06 20:42:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-06 20:42:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-06 20:42:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-06 20:42:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:40.302][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.303][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-06 20:42:40.304][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.305][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:40.308][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.309][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.311][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:40.312][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-06 20:42:40.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:40.354][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-06 20:42:40.358][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 20:42:40.378][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:40.393][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 20:42:40.394][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:40.396][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 20:42:40.417][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[2025-03-06 20:42:40.420][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:40.422][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:40.423][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:40.425][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:40.427][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-06 20:42:40.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:40.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.440][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.441][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.442][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.444][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:40.447][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.448][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-03-06 20:42:40.449][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.450][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:40.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:40.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:40.541][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[2025-03-06 20:42:40.544][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:40.545][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:40.547][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:40.548][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-06 20:42:40.562][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.563][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-03-06 20:42:40.564][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.565][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.606][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.613][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:40.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:40.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:40.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:40.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:40.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.659][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.662][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 20:42:40.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.666][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:40.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 20:42:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 20:42:40.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:40.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:40.678][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.679][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-06 20:42:40.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.681][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.688][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.689][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-06 20:42:40.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.691][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.698][biodb::testThat]
biodb.INFO [2025-03-06 20:42:40.698][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-06 20:42:40.699][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:40.700][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:40.703][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-06 20:42:41.594][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-06 20:42:42.715][biodb::testThat]
biodb.INFO [2025-03-06 20:42:42.718][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-06 20:42:42.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:42.722][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:43.116][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[2025-03-06 20:42:43.505][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.515][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.517][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.522][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:43.526][biodb::testThat]
biodb.INFO [2025-03-06 20:42:43.528][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-03-06 20:42:43.530][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:43.533][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:43.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:43.664][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[2025-03-06 20:42:43.668][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:43.669][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:43.670][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:43.671][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:43.727][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[2025-03-06 20:42:43.730][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:43.732][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:43.733][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:43.734][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-06 20:42:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 20:42:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 20:42:43.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:43.777][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[2025-03-06 20:42:43.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:43.781][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 20:42:43.783][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:43.784][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 20:42:43.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:43.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:43.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:43.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:43.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:43.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:43.800][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[2025-03-06 20:42:43.801][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-06 20:42:43.844][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:43.845][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-06 20:42:43.846][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:43.848][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-03-06 20:42:43.849][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:43.850][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:43.851][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:43.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:43.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:43.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:43.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:43.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:43.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:43.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:43.863][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.864][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.866][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.871][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:43.871][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:43.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.874][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:43.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:43.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.878][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:43.879][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:43.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.881][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:43.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:43.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.886][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:43.887][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:43.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:43.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:43.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.893][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:43.894][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:43.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.896][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:43.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:43.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.901][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:43.902][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:43.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.904][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.905][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:43.906][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.907][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.909][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:43.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.912][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.913][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.915][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:43.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.920][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.921][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.922][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:43.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:43.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.927][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:43.928][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:43.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.930][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:43.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:43.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:43.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:43.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.938][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:43.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:43.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:43.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:43.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:43.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:43.983][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-06 20:42:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:43.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:43.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.004][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[2025-03-06 20:42:44.008][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:44.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 20:42:44.010][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.012][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 20:42:44.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.057][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-06 20:42:44.058][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.060][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-06 20:42:44.062][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.063][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-03-06 20:42:44.064][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.065][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.066][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.079][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.086][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.087][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.089][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.094][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.097][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.102][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.103][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.105][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.110][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.111][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.118][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.125][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.127][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.128][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.129][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.131][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.134][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.135][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.137][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.142][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.150][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.151][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.153][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.158][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.162][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.212][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-06 20:42:44.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.248][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[2025-03-06 20:42:44.252][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:44.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:44.255][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.257][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:44.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.295][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-06 20:42:44.296][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.298][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-06 20:42:44.299][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.301][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-03-06 20:42:44.302][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.332][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.336][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.341][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.342][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.346][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.349][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.351][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.353][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.354][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.355][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.357][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.358][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.363][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.364][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.366][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.370][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.371][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.372][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.374][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.379][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.380][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.382][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.383][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.388][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.389][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.390][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.429][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-06 20:42:44.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.458][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-06 20:42:44.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.460][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-06 20:42:44.461][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.463][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-03-06 20:42:44.464][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.465][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.466][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.478][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.479][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.481][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.486][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.487][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.488][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.497][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.499][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.502][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.505][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.506][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.507][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.508][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.510][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.511][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.516][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.517][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.520][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.525][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.526][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.528][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.529][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.533][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.534][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.535][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.573][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-06 20:42:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.602][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-06 20:42:44.603][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-06 20:42:44.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.607][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-03-06 20:42:44.608][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.609][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.610][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.622][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.623][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.625][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.630][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.633][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.634][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.635][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.637][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.641][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.642][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.643][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.645][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.646][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.647][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.648][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.650][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.651][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.655][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.661][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.662][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.665][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.670][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.671][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.673][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.681][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.719][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-06 20:42:44.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.749][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-06 20:42:44.750][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.751][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-06 20:42:44.752][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.754][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-03-06 20:42:44.755][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.756][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.757][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.769][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.770][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.772][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.777][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.779][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.781][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.785][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.788][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.789][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.793][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.794][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.796][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.802][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.803][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.808][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.809][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.811][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.812][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.816][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.817][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.819][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.820][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.828][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.829][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.836][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.837][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.839][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:44.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:44.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.844][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.845][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.847][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.848][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:44.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:44.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.852][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.853][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.855][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:44.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:44.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:44.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.897][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-06 20:42:44.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:44.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:44.918][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-06 20:42:44.919][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:44.920][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-06 20:42:44.922][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:44.924][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-03-06 20:42:44.925][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:44.926][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:44.927][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:44.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:44.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:44.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:44.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:44.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:44.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:44.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:44.939][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.940][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.942][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:44.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:44.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.947][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.950][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:44.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:44.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.956][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.957][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:44.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:44.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:44.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:44.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.972][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.974][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:44.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.979][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.981][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:44.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.989][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.990][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:44.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:44.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:44.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:44.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:44.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.001][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.006][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.007][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.014][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.015][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.017][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.021][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.022][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.024][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.065][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-06 20:42:45.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.086][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-06 20:42:45.087][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.088][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-06 20:42:45.090][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.091][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-03-06 20:42:45.092][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.109][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.114][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.116][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.118][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.121][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.122][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.129][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.130][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.132][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.139][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.148][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.149][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.151][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.163][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.168][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.170][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.178][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.179][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.186][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.187][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.228][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-06 20:42:45.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.249][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-06 20:42:45.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.251][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-06 20:42:45.252][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.254][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-03-06 20:42:45.255][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.269][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.279][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.284][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.287][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.294][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.299][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.302][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.309][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.310][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.313][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.318][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.323][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.325][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.330][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.331][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.333][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.339][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.341][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.346][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.347][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.348][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.390][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-06 20:42:45.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.411][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-06 20:42:45.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-06 20:42:45.415][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.416][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-03-06 20:42:45.417][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.418][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.419][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.432][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.433][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.439][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.440][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.442][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.447][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.448][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.457][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.462][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.463][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.465][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.470][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.473][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.474][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.475][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.476][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.478][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.482][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.488][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.493][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.494][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.501][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.504][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.513][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.553][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-06 20:42:45.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.574][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-06 20:42:45.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-06 20:42:45.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.579][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-06 20:42:45.580][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.581][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.582][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.594][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.597][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.602][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.610][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.611][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.612][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.617][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.618][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.620][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.626][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.627][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.635][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.636][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.637][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.639][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.640][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.651][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.659][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.671][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.672][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.715][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-06 20:42:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.737][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-06 20:42:45.737][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.739][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-06 20:42:45.740][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.742][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-06 20:42:45.743][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.744][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.745][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.757][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.758][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.760][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.765][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.766][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.769][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.773][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.775][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.780][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.781][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.783][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.798][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.799][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.803][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.807][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.810][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.821][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.823][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.829][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.829][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.832][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.839][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.881][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-06 20:42:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:45.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:45.902][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-06 20:42:45.903][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:45.905][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-06 20:42:45.906][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:45.907][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-06 20:42:45.908][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:45.909][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:45.910][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:45.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:45.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:45.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:45.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:45.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:45.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:45.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:45.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.923][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.925][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:45.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:45.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.930][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.933][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:45.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:45.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.937][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.941][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:45.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:45.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:45.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.948][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:45.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.953][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.954][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:45.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.956][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.957][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.959][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.961][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:45.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:45.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.972][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.975][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:45.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.984][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.987][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.988][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:45.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:45.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:45.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:45.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:45.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:45.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:45.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.033][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-06 20:42:46.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.053][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[2025-03-06 20:42:46.054][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-06 20:42:46.055][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-06 20:42:46.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.059][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-06 20:42:46.060][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.062][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.063][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.075][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.078][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.083][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.083][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.085][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.086][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.090][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.100][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.103][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.104][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.108][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.110][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.111][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.112][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.113][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.117][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.118][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.133][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.134][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.136][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.137][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.179][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.181][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.221][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-06 20:42:46.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.245][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.DEBUG[2025-03-06 20:42:46.246][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-06 20:42:46.247][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-06 20:42:46.250][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.252][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-06 20:42:46.253][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.255][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.268][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.271][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.284][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.284][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.286][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.292][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.294][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.299][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.302][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.312][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.314][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.320][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.321][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.322][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.327][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.328][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.330][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.335][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.336][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.339][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.343][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.344][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.347][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.409][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-06 20:42:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.436][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[2025-03-06 20:42:46.437][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-06 20:42:46.438][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.440][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-06 20:42:46.441][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.457][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-06 20:42:46.458][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.460][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.461][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.478][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.484][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.485][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.487][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.492][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.495][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.500][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.502][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.521][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.522][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.523][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.525][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.532][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.540][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.542][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.547][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.548][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.550][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.556][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.557][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.558][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.613][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-06 20:42:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.633][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[2025-03-06 20:42:46.634][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-06 20:42:46.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.636][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-06 20:42:46.637][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.639][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-06 20:42:46.640][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.641][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.642][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.654][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.655][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.657][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.662][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.665][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.669][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.672][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.685][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.686][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.687][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.692][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.693][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.695][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.696][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.699][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.700][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.704][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.705][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.706][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.711][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.712][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.719][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.722][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.727][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.729][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.730][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.776][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-06 20:42:46.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:46.798][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-06 20:42:46.799][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.800][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-06 20:42:46.801][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.803][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-06 20:42:46.804][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.805][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.806][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.821][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.826][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.827][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.829][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.833][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.836][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:46.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.844][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:46.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:46.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.849][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.851][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:46.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.856][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:46.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.860][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.861][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.863][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.864][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:46.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.869][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:46.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.875][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.878][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:46.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.883][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.884][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.886][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:46.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.891][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.894][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:46.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:46.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.941][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-06 20:42:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:46.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:46.962][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-06 20:42:46.963][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:46.965][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-06 20:42:46.966][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:46.968][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-06 20:42:46.969][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:46.970][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:46.971][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:46.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:46.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:46.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:46.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:46.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:46.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:46.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:46.983][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.986][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:46.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:46.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.991][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.992][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.994][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.995][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:46.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:46.999][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.000][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.002][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.003][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.007][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.008][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.015][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.017][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.022][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.023][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.024][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.026][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.028][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.030][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.034][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.036][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.041][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.044][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.049][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.050][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.051][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.059][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.060][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.106][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-06 20:42:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:47.127][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-06 20:42:47.128][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:47.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-06 20:42:47.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:47.132][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-06 20:42:47.133][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:47.134][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:47.135][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:47.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.147][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.150][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.155][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:47.156][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:47.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.157][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.159][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:47.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:47.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.162][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.165][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.170][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.171][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.173][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.178][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.180][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.188][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.189][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.190][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.192][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.193][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.197][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.198][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.199][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.204][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.205][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.207][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.213][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.215][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.220][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.222][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.269][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-06 20:42:47.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:47.290][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-06 20:42:47.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:47.294][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-06 20:42:47.295][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:47.302][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-06 20:42:47.303][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:47.304][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:47.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:47.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.317][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.318][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.320][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.325][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:47.326][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:47.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.327][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.328][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:47.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:47.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.335][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:47.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:47.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.341][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.343][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.348][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.348][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.350][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:47.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.359][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.360][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.362][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:47.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.369][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.374][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.375][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:47.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:47.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.382][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.383][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:47.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.389][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.390][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.392][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:47.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:47.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:47.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.438][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-06 20:42:47.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.466][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[2025-03-06 20:42:47.469][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:47.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:47.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:47.473][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:47.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.484][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[2025-03-06 20:42:47.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.593][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[2025-03-06 20:42:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.738][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.TRACE[2025-03-06 20:42:47.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.787][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[2025-03-06 20:42:47.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:47.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:47.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:47.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:47.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:47.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:47.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:47.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:47.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:47.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:47.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:47.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:47.982][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[2025-03-06 20:42:47.985][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:47.987][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-06 20:42:47.988][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:47.989][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-06 20:42:47.992][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[2025-03-06 20:42:47.995][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:47.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-06 20:42:47.997][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:47.999][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-06 20:42:48.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:48.010][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-06 20:42:48.011][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:48.012][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-06 20:42:48.014][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:48.015][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-06 20:42:48.016][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:48.017][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:48.018][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:48.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.031][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.032][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.038][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:48.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:48.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.041][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:48.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:48.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.046][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:48.047][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:48.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.048][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:48.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:48.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:48.055][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:48.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.056][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:48.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:48.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.064][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.069][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.071][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.077][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.081][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:48.082][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:48.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.084][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.085][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:48.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:48.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.089][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.091][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.096][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:48.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:48.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.099][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:48.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:48.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.104][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:48.105][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:48.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.108][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:48.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:48.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.111][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:48.112][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:48.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:48.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:48.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.156][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-06 20:42:48.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:48.198][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-06 20:42:48.199][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:48.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-06 20:42:48.201][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:48.203][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-06 20:42:48.204][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:48.205][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:48.206][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:48.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.218][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.221][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.226][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:48.227][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:48.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.229][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:48.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:48.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.234][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:48.235][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:48.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.236][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:48.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:48.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:48.247][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:48.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.254][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.255][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:48.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.263][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:48.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.264][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.266][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:48.267][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:48.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.268][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.269][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:48.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:48.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.276][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.281][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:48.282][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:48.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.289][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:48.290][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:48.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.291][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:48.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:48.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:48.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:48.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.299][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:48.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:48.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:48.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:48.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:48.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.340][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-06 20:42:48.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.368][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[2025-03-06 20:42:48.371][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:48.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:48.374][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:48.375][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:48.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.412][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[2025-03-06 20:42:48.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.441][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.TRACE[2025-03-06 20:42:48.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.469][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[2025-03-06 20:42:48.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.517][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[2025-03-06 20:42:48.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.538][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.TRACE[2025-03-06 20:42:48.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.648][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.TRACE[2025-03-06 20:42:48.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.710][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.TRACE[2025-03-06 20:42:48.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.798][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.TRACE[2025-03-06 20:42:48.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.848][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[2025-03-06 20:42:48.851][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:48.852][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 20:42:48.854][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:48.855][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 20:42:48.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.887][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[2025-03-06 20:42:48.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.949][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.TRACE[2025-03-06 20:42:48.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:48.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:48.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:48.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:48.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:48.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:48.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:48.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:48.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:48.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:48.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.060][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.TRACE[2025-03-06 20:42:49.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.086][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.TRACE[2025-03-06 20:42:49.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.209][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[2025-03-06 20:42:49.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.298][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.TRACE[2025-03-06 20:42:49.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.324][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:49.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:49.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:49.334][biodb::testThat]
biodb.INFO [2025-03-06 20:42:49.335][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-06 20:42:49.336][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:49.337][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:49.340][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 20:42:49.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 20:42:49.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:49.375][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[2025-03-06 20:42:49.378][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:49.380][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 20:42:49.381][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:49.383][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 20:42:49.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.394][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.TRACE[2025-03-06 20:42:49.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.407][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[2025-03-06 20:42:49.416][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:49.417][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 20:42:49.419][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:49.420][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 20:42:49.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:49.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.465][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:49.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.486][private$selectFields]
biodb.TRACE[2025-03-06 20:42:49.487][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:49.488][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:49.489][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.497][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.499][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.503][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:49.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.524][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 20:42:49.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.543][private$selectFields]
biodb.TRACE[2025-03-06 20:42:49.544][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:49.545][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:49.546][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.547][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.548][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.550][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.553][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.554][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.555][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.559][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.560][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:49.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.572][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:49.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.596][private$selectFields]
biodb.TRACE[2025-03-06 20:42:49.597][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:49.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:49.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.603][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.606][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.608][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.609][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:49.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.624][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 20:42:49.625][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:49.626][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:49.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.710][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[2025-03-06 20:42:49.712][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[2025-03-06 20:42:49.715][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:49.717][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-06 20:42:49.718][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:49.719][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-06 20:42:49.722][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[2025-03-06 20:42:49.725][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:49.726][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-06 20:42:49.727][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:49.737][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-06 20:42:49.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.748][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[2025-03-06 20:42:49.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.769][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.TRACE[2025-03-06 20:42:49.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:49.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:49.825][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:49.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.867][private$selectFields]
biodb.TRACE[2025-03-06 20:42:49.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:49.868][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:49.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.874][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.877][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.879][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.882][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.883][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:49.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.902][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 20:42:49.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:49.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:49.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.952][private$selectFields]
biodb.TRACE[2025-03-06 20:42:49.953][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:49.954][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:49.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.956][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.957][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.959][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.963][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.974][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:49.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.977][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.978][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:49.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:49.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:49.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:49.991][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:49.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:49.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:49.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:49.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:49.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:49.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.009][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.010][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.011][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.012][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.022][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.026][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.039][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 20:42:50.039][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:50.045][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:50.054][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:50.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:50.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:50.061][biodb::testThat]
biodb.INFO [2025-03-06 20:42:50.062][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-06 20:42:50.063][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:50.064][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:50.066][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 20:42:50.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 20:42:50.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:50.098][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[2025-03-06 20:42:50.101][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 20:42:50.104][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.105][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 20:42:50.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.128][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[2025-03-06 20:42:50.131][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.132][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 20:42:50.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.135][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 20:42:50.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.166][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.TRACE[2025-03-06 20:42:50.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.178][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:50.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.198][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.199][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.200][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.203][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.204][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.208][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.215][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.216][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.217][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.219][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.220][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.232][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 20:42:50.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.251][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.252][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.253][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.261][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.263][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.267][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.268][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.280][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:50.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.299][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.300][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.301][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.301][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.302][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.306][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.311][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.316][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.328][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 20:42:50.329][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:50.330][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:50.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:50.367][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[2025-03-06 20:42:50.370][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.371][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-06 20:42:50.372][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.373][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-06 20:42:50.383][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[2025-03-06 20:42:50.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-06 20:42:50.389][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.391][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-06 20:42:50.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.443][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[2025-03-06 20:42:50.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.456][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:50.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.475][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.476][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.477][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.478][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.479][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.481][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.482][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.486][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.486][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.490][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.491][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.503][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 20:42:50.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.530][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.531][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.532][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.537][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.541][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.543][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.544][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.545][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.547][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.583][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:50.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.603][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.604][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.605][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.606][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.615][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.617][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.622][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.635][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 20:42:50.636][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:50.637][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:50.645][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:50.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:50.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:50.652][biodb::testThat]
biodb.INFO [2025-03-06 20:42:50.653][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-06 20:42:50.654][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:50.655][biodb::testThat]
biodb.TRACE[2025-03-06 20:42:50.658][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 20:42:50.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 20:42:50.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:50.694][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[2025-03-06 20:42:50.698][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.699][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 20:42:50.700][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.701][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 20:42:50.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.713][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[2025-03-06 20:42:50.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.726][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[2025-03-06 20:42:50.729][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.730][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 20:42:50.731][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.732][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 20:42:50.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.743][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[2025-03-06 20:42:50.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:50.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.782][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:50.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.793][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.TRACE[2025-03-06 20:42:50.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.802][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.803][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.804][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.808][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.812][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.814][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.817][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.818][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.831][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 20:42:50.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.851][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.851][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.852][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.857][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.861][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.862][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.866][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.867][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.879][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:50.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:50.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.898][private$selectFields]
biodb.TRACE[2025-03-06 20:42:50.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:50.900][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:50.901][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.905][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.909][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.911][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:50.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.920][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.921][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:50.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:50.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.934][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 20:42:50.935][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:50.936][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:50.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:50.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:50.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:50.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:50.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:50.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:50.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:50.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:50.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:50.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:50.984][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[2025-03-06 20:42:50.987][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.988][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-06 20:42:50.989][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:50.991][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-06 20:42:50.993][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[2025-03-06 20:42:50.996][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:50.998][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-06 20:42:50.999][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:51.000][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-06 20:42:51.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.053][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.TRACE[2025-03-06 20:42:51.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.065][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 20:42:51.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.090][private$selectFields]
biodb.TRACE[2025-03-06 20:42:51.091][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:51.091][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:51.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.096][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.100][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.101][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.102][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.105][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.106][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:51.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.118][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 20:42:51.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.137][private$selectFields]
biodb.TRACE[2025-03-06 20:42:51.138][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:51.139][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:51.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.144][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.144][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.149][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.152][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.153][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:51.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.165][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 20:42:51.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.184][private$selectFields]
biodb.TRACE[2025-03-06 20:42:51.185][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 20:42:51.186][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 20:42:51.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.194][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.196][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 20:42:51.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.200][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.200][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 20:42:51.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.213][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 20:42:51.214][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 20:42:51.214][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 20:42:51.231][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:51.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 20:42:51.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:51.237][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.238][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-03-06 20:42:51.239][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.240][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:51.246][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-06 20:42:51.247][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:51.248][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-06 20:42:51.250][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:51.251][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-06 20:42:51.252][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:51.253][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:51.254][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:51.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.266][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.269][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.274][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.275][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.277][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.278][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.283][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.285][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.288][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.289][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.290][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.292][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.293][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.294][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.296][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.299][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.300][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.303][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.304][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.305][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.307][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.308][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.309][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.348][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-06 20:42:51.349][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-06 20:42:51.356][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.357][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-06 20:42:51.358][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.359][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:51.367][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-06 20:42:51.368][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-06 20:42:51.368][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-06 20:42:51.370][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-06 20:42:51.371][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-06 20:42:51.373][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-06 20:42:51.374][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:51.375][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-06 20:42:51.376][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:51.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.388][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.391][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.396][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.397][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.398][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.400][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.409][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.412][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.413][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.414][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.416][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.417][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.418][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.420][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.421][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.424][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.427][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.429][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.430][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.431][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.433][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.434][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.437][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.439][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.476][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.484][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.485][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.487][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.492][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.494][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.502][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.508][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.509][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.514][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.517][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.518][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.522][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.523][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.525][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.530][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.533][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.538][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.539][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.553][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.554][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.556][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.557][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:51.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:51.603][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.604][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.610][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.611][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.613][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.614][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:51.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:51.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.618][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.622][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:51.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:51.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.625][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.626][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.628][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:51.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:51.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.633][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.634][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.636][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:51.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.641][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.642][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.643][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.644][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:51.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.648][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.649][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.651][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.652][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:51.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:51.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.658][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.671][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.675][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:51.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:51.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.680][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.681][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.683][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:51.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:51.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:51.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:51.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:51.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:51.751][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-06 20:42:51.752][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-06 20:42:51.752][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-06 20:42:51.764][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.765][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-03-06 20:42:51.766][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.766][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.788][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.789][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-03-06 20:42:51.790][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.791][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.798][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.799][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-03-06 20:42:51.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.801][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:51.803][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[2025-03-06 20:42:51.806][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:51.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-06 20:42:51.808][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:51.810][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-06 20:42:51.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:51.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:51.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.823][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:51.824][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.825][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:51.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:51.827][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 20:42:51.828][biodb::testThat]
biodb.INFO [2025-03-06 20:42:51.829][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-06 20:42:51.830][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:51.831][biodb::testThat]
biodb.ERROR[2025-03-06 20:42:51.844][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-06 20:42:51.860][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-06 20:42:51.873][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 20:42:51.874][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 20:42:51.875][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 20:42:51.876][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 20:42:51.877][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:51.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:51.878][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:51.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:51.880][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.881][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.INFO [2025-03-06 20:42:51.896][biodb::testContext]
biodb.INFO [2025-03-06 20:42:51.897][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:51.898][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-06 20:42:51.899][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:51.900][biodb::testContext]
biodb.INFO [2025-03-06 20:42:51.902][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:51.904][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:51.907][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:51.908][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 20:42:51.909][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.913][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 20:42:51.914][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.916][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[2025-03-06 20:42:51.917][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 20:42:51.918][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.921][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 20:42:51.922][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 20:42:51.923][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 20:42:51.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.926][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[2025-03-06 20:42:51.926][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 20:42:51.927][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 20:42:51.928][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.932][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 20:42:51.933][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 20:42:51.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.935][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[2025-03-06 20:42:51.936][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 20:42:51.937][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 20:42:51.938][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 20:42:51.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.941][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 20:42:51.942][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.945][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 20:42:51.946][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 20:42:51.947][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 20:42:51.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.951][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:51.951][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 20:42:51.952][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 20:42:51.953][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 20:42:51.954][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 20:42:51.955][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 20:42:51.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.958][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 20:42:51.959][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 20:42:51.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.963][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 20:42:51.964][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 20:42:51.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.967][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 20:42:51.968][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 20:42:51.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.971][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 20:42:51.972][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 20:42:51.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.975][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 20:42:51.976][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 20:42:51.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.980][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:51.980][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 20:42:51.984][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 20:42:51.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.987][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 20:42:51.988][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 20:42:51.989][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 20:42:51.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:51.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:51.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:51.992][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 20:42:51.994][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:51.995][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 20:42:51.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:51.997][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:51.998][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:51.999][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.000][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.000][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.001][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:52.002][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.003][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.004][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 20:42:52.005][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.006][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.007][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.008][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:52.008][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:52.008][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:52.008][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:52.008][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:52.009][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.010][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.011][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.011][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.014][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.015][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.016][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.017][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.017][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.018][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.019][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 20:42:52.021][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.022][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:52.023][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.024][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.025][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.026][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.027][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.027][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.028][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:52.029][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.030][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.031][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 20:42:52.032][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.033][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.034][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.035][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:52.035][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:52.035][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:52.035][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:52.035][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:52.036][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.037][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.038][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.039][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.040][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.041][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.042][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.043][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.044][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.045][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.045][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.052][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 20:42:52.054][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.055][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 20:42:52.056][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.057][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.058][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.059][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.060][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.061][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.062][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:52.063][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.064][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.064][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 20:42:52.065][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.066][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.067][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.068][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.072][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.073][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.074][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.075][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.076][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.077][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.078][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.079][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.080][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 20:42:52.081][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.082][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:52.083][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.084][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.085][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.086][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.087][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.088][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.089][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:52.090][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.091][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.092][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 20:42:52.092][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.093][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.094][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.095][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.096][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.097][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.098][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.099][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.102][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.103][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.104][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.105][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.106][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.107][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:52.108][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.133][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[2025-03-06 20:42:52.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.137][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[2025-03-06 20:42:52.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.145][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[2025-03-06 20:42:52.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.162][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.DEBUG[2025-03-06 20:42:52.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.166][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[2025-03-06 20:42:52.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.174][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[2025-03-06 20:42:52.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.178][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[2025-03-06 20:42:52.179][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 20:42:52.180][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 20:42:52.182][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 20:42:52.183][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 20:42:52.184][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:52.186][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 20:42:52.187][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:52.188][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:52.189][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 20:42:52.191][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 20:42:52.192][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:52.193][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 20:42:52.194][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:52.196][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:52.197][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 20:42:52.198][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 20:42:52.204][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 20:42:52.206][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 20:42:52.207][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:52.209][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 20:42:52.210][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 20:42:52.211][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 20:42:52.213][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 20:42:52.214][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 20:42:52.215][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 20:42:52.217][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 20:42:52.218][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 20:42:52.219][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 20:42:52.221][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 20:42:52.222][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 20:42:52.223][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 20:42:52.224][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 20:42:52.226][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 20:42:52.227][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 20:42:52.228][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 20:42:52.230][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 20:42:52.231][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 20:42:52.232][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 20:42:52.233][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 20:42:52.235][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 20:42:52.236][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 20:42:52.237][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 20:42:52.238][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 20:42:52.240][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 20:42:52.241][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 20:42:52.242][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 20:42:52.244][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 20:42:52.245][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 20:42:52.246][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 20:42:52.247][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 20:42:52.249][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 20:42:52.250][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 20:42:52.251][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 20:42:52.253][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 20:42:52.254][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 20:42:52.255][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 20:42:52.256][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 20:42:52.258][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 20:42:52.259][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 20:42:52.260][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 20:42:52.262][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 20:42:52.263][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 20:42:52.264][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 20:42:52.266][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 20:42:52.267][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 20:42:52.268][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 20:42:52.269][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:52.271][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:52.272][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 20:42:52.273][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 20:42:52.275][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 20:42:52.276][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 20:42:52.277][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 20:42:52.278][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 20:42:52.280][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 20:42:52.281][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 20:42:52.282][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 20:42:52.284][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 20:42:52.285][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 20:42:52.286][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 20:42:52.287][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 20:42:52.289][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 20:42:52.290][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 20:42:52.291][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 20:42:52.293][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:52.294][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:52.295][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.297][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.298][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[2025-03-06 20:42:52.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.315][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.DEBUG[2025-03-06 20:42:52.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.326][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[2025-03-06 20:42:52.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.338][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[2025-03-06 20:42:52.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.367][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[2025-03-06 20:42:52.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.378][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[2025-03-06 20:42:52.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.403][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:52.404][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 20:42:52.406][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.407][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.408][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.408][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.409][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.410][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.411][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.412][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 20:42:52.413][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 20:42:52.414][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.415][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.416][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 20:42:52.417][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 20:42:52.418][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 20:42:52.419][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.419][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:52.419][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:52.419][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:52.420][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 20:42:52.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.426][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.426][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 20:42:52.426][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 20:42:52.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.428][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.429][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.430][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 20:42:52.430][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 20:42:52.431][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:52.433][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:52.434][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 20:42:52.435][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:52.437][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:52.438][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:52.442][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 20:42:52.443][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 20:42:52.444][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 20:42:52.445][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 20:42:52.446][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:52.447][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:52.448][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 20:42:52.449][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 20:42:52.451][biodb::testThat]
biodb.INFO [2025-03-06 20:42:52.451][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-03-06 20:42:52.452][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:52.453][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:52.457][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 20:42:52.460][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 20:42:52.462][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.464][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 20:42:52.467][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[2025-03-06 20:42:52.470][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.471][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-06 20:42:52.472][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.473][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-06 20:42:52.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.483][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[2025-03-06 20:42:52.485][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[2025-03-06 20:42:52.487][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.489][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-06 20:42:52.490][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.491][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-06 20:42:52.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.535][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[2025-03-06 20:42:52.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.539][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-06 20:42:52.540][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.542][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-06 20:42:52.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.551][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[2025-03-06 20:42:52.553][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[2025-03-06 20:42:52.556][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.557][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-06 20:42:52.558][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.559][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-06 20:42:52.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.582][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[2025-03-06 20:42:52.585][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.586][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-06 20:42:52.587][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.589][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-06 20:42:52.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.598][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[2025-03-06 20:42:52.600][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[2025-03-06 20:42:52.603][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-06 20:42:52.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.607][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-06 20:42:52.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.618][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[2025-03-06 20:42:52.621][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.622][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-03-06 20:42:52.623][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.625][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-03-06 20:42:52.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 20:42:52.640][biodb::testThat]
biodb.INFO [2025-03-06 20:42:52.641][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-03-06 20:42:52.642][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:52.643][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:52.646][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[2025-03-06 20:42:52.649][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.650][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-03-06 20:42:52.651][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.653][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-03-06 20:42:52.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.667][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[2025-03-06 20:42:52.670][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:52.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-03-06 20:42:52.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:52.679][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-03-06 20:42:52.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:52.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 20:42:52.694][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 20:42:52.695][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 20:42:52.696][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 20:42:52.697][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 20:42:52.698][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:52.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:52.700][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.701][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 20:42:52.705][biodb::testContext]
biodb.INFO [2025-03-06 20:42:52.706][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:52.707][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-06 20:42:52.708][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:52.709][biodb::testContext]
biodb.INFO [2025-03-06 20:42:52.711][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:52.712][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:52.716][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:52.717][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 20:42:52.718][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.721][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 20:42:52.722][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.725][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 20:42:52.726][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.730][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 20:42:52.730][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 20:42:52.731][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 20:42:52.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.735][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 20:42:52.736][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 20:42:52.737][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.740][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 20:42:52.741][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 20:42:52.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.744][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 20:42:52.745][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 20:42:52.746][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 20:42:52.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.749][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 20:42:52.750][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.754][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 20:42:52.755][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 20:42:52.756][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 20:42:52.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.759][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:52.760][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 20:42:52.761][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 20:42:52.762][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 20:42:52.763][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 20:42:52.764][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 20:42:52.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.767][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 20:42:52.768][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 20:42:52.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.771][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 20:42:52.772][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 20:42:52.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.775][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 20:42:52.776][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 20:42:52.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.780][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 20:42:52.781][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 20:42:52.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.784][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 20:42:52.785][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 20:42:52.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.788][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:52.789][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 20:42:52.792][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 20:42:52.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.795][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[2025-03-06 20:42:52.796][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 20:42:52.797][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 20:42:52.798][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 20:42:52.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.801][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 20:42:52.803][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.804][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 20:42:52.805][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.807][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.808][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.809][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.810][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:52.811][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.812][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.813][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 20:42:52.814][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.815][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.816][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.817][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:52.817][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:52.817][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:52.817][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:52.817][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:52.818][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.819][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.821][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.823][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.824][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.825][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.827][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.829][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 20:42:52.830][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.831][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:52.837][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.838][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.840][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.842][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.843][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:52.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.846][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 20:42:52.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.848][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:52.849][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:52.850][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.853][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.856][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.856][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.860][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.861][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 20:42:52.863][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.864][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 20:42:52.864][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.865][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.866][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.867][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.870][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:52.871][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.872][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.873][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 20:42:52.874][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.874][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.875][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.876][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.877][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.878][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.880][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.882][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.883][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.884][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.885][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.886][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.886][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.888][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 20:42:52.889][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.890][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:52.891][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.892][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:52.893][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.894][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.895][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.896][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.896][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:52.897][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:52.898][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.899][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 20:42:52.900][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:52.901][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.902][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:52.903][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:52.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:52.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:52.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:52.909][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:52.910][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:52.911][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:52.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:52.913][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:52.914][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:52.915][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.916][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[2025-03-06 20:42:52.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.940][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.DEBUG[2025-03-06 20:42:52.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:52.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:52.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:52.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:52.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:52.992][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[2025-03-06 20:42:52.994][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 20:42:52.996][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 20:42:52.997][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 20:42:52.998][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 20:42:53.000][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:53.001][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 20:42:53.002][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:53.004][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:53.005][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 20:42:53.006][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 20:42:53.007][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:53.009][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 20:42:53.010][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:53.011][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:53.013][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 20:42:53.014][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 20:42:53.015][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 20:42:53.016][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 20:42:53.018][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:53.019][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 20:42:53.020][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 20:42:53.022][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 20:42:53.023][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 20:42:53.024][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 20:42:53.025][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 20:42:53.027][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 20:42:53.028][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 20:42:53.029][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 20:42:53.030][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 20:42:53.032][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 20:42:53.033][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 20:42:53.034][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 20:42:53.035][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 20:42:53.037][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 20:42:53.038][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 20:42:53.039][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 20:42:53.040][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 20:42:53.042][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 20:42:53.043][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 20:42:53.044][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 20:42:53.046][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 20:42:53.047][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 20:42:53.048][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 20:42:53.049][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 20:42:53.051][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 20:42:53.052][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 20:42:53.053][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 20:42:53.054][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 20:42:53.056][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 20:42:53.057][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 20:42:53.058][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 20:42:53.059][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 20:42:53.061][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 20:42:53.062][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 20:42:53.063][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 20:42:53.064][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 20:42:53.066][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 20:42:53.067][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 20:42:53.068][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 20:42:53.070][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 20:42:53.071][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 20:42:53.072][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 20:42:53.073][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 20:42:53.075][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 20:42:53.076][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 20:42:53.077][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 20:42:53.078][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:53.080][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:53.081][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 20:42:53.082][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 20:42:53.083][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 20:42:53.085][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 20:42:53.086][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 20:42:53.087][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 20:42:53.088][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 20:42:53.090][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 20:42:53.091][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 20:42:53.092][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 20:42:53.094][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 20:42:53.095][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 20:42:53.096][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 20:42:53.097][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 20:42:53.099][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 20:42:53.100][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 20:42:53.101][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:53.102][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:53.103][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.105][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.330][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[2025-03-06 20:42:53.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.341][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[2025-03-06 20:42:53.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.380][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.DEBUG[2025-03-06 20:42:53.381][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:53.383][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 20:42:53.384][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.385][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.386][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.387][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.388][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.389][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.390][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.391][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 20:42:53.391][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 20:42:53.392][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.393][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.394][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 20:42:53.395][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 20:42:53.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 20:42:53.397][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.398][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:53.398][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:53.398][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:53.399][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 20:42:53.400][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.401][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.404][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.405][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 20:42:53.405][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 20:42:53.405][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.406][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.407][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.408][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 20:42:53.408][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 20:42:53.409][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:53.411][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:53.412][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 20:42:53.413][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:53.415][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:53.416][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:53.419][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 20:42:53.420][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 20:42:53.421][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 20:42:53.422][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 20:42:53.424][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:53.424][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:53.426][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 20:42:53.427][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 20:42:53.428][biodb::testThat]
biodb.INFO [2025-03-06 20:42:53.429][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-06 20:42:53.430][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:53.431][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:53.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 20:42:53.437][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:53.438][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 20:42:53.439][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:53.440][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 20:42:53.444][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[2025-03-06 20:42:53.446][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:53.448][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-06 20:42:53.449][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:53.450][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-03-06 20:42:53.457][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 20:42:53.458][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 20:42:53.459][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 20:42:53.460][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 20:42:53.461][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.462][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.464][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.469][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.INFO [2025-03-06 20:42:53.472][biodb::testContext]
biodb.INFO [2025-03-06 20:42:53.473][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:53.474][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-06 20:42:53.475][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 20:42:53.475][biodb::testContext]
biodb.INFO [2025-03-06 20:42:53.477][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:53.479][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:53.482][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:53.483][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 20:42:53.484][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.487][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 20:42:53.488][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.492][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 20:42:53.492][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.496][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 20:42:53.497][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 20:42:53.497][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 20:42:53.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.501][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 20:42:53.502][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 20:42:53.503][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.506][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 20:42:53.507][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 20:42:53.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.510][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 20:42:53.511][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 20:42:53.512][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 20:42:53.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.515][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 20:42:53.516][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.518][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[2025-03-06 20:42:53.519][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 20:42:53.520][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 20:42:53.521][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 20:42:53.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.524][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:53.525][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 20:42:53.526][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 20:42:53.527][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 20:42:53.528][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 20:42:53.528][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 20:42:53.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.532][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 20:42:53.533][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 20:42:53.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.536][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 20:42:53.537][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 20:42:53.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.539][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[2025-03-06 20:42:53.540][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 20:42:53.541][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 20:42:53.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.544][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 20:42:53.545][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 20:42:53.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.547][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[2025-03-06 20:42:53.548][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 20:42:53.549][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 20:42:53.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.552][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 20:42:53.553][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 20:42:53.557][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 20:42:53.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.560][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[2025-03-06 20:42:53.561][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 20:42:53.562][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 20:42:53.563][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 20:42:53.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.566][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 20:42:53.568][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.569][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 20:42:53.570][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.571][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.572][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.573][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.573][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.574][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.575][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:53.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.578][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 20:42:53.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.580][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.580][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.581][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:53.581][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:53.581][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:53.581][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:53.581][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:53.582][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:53.583][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.585][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.587][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.588][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.589][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.590][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.591][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.592][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.593][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 20:42:53.595][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.596][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:53.596][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.597][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.598][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.599][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.600][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.601][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.602][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:53.603][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.604][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.605][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 20:42:53.606][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.606][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.607][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.608][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:53.608][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:53.608][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:53.608][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 20:42:53.608][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 20:42:53.609][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:53.610][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.612][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.613][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.614][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.615][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.616][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.617][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.618][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.619][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.620][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 20:42:53.621][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.622][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 20:42:53.623][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.632][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.633][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 20:42:53.634][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.634][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.635][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 20:42:53.636][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.637][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.638][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.639][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.640][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:53.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.646][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.647][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.648][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.649][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.650][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 20:42:53.652][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.653][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 20:42:53.653][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.655][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.656][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.657][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.658][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.659][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 20:42:53.660][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.660][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.661][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 20:42:53.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.663][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.664][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.665][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.666][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 20:42:53.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.671][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.672][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.673][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.674][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.674][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.675][self$setPropertyValue]
biodb.DEBUG[2025-03-06 20:42:53.676][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:53.677][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.678][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.DEBUG[2025-03-06 20:42:53.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.686][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.DEBUG[2025-03-06 20:42:53.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.694][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[2025-03-06 20:42:53.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.710][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[2025-03-06 20:42:53.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.714][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[2025-03-06 20:42:53.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.717][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.DEBUG[2025-03-06 20:42:53.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.741][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[2025-03-06 20:42:53.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.746][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 20:42:53.748][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 20:42:53.749][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 20:42:53.750][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 20:42:53.752][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:53.753][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 20:42:53.754][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:53.755][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:53.757][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 20:42:53.758][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 20:42:53.759][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:53.761][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 20:42:53.762][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 20:42:53.763][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 20:42:53.764][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 20:42:53.766][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 20:42:53.767][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 20:42:53.768][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 20:42:53.769][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:53.771][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 20:42:53.772][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 20:42:53.773][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 20:42:53.775][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 20:42:53.776][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 20:42:53.782][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 20:42:53.783][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 20:42:53.784][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 20:42:53.785][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 20:42:53.787][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 20:42:53.788][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 20:42:53.789][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 20:42:53.790][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 20:42:53.792][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 20:42:53.793][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 20:42:53.794][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 20:42:53.795][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 20:42:53.797][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 20:42:53.798][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 20:42:53.799][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 20:42:53.800][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 20:42:53.802][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 20:42:53.803][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 20:42:53.804][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 20:42:53.805][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 20:42:53.807][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 20:42:53.808][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 20:42:53.809][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 20:42:53.810][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 20:42:53.812][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 20:42:53.813][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 20:42:53.814][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 20:42:53.815][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 20:42:53.816][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 20:42:53.818][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 20:42:53.819][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 20:42:53.820][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 20:42:53.821][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 20:42:53.823][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 20:42:53.824][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 20:42:53.825][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 20:42:53.826][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 20:42:53.827][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 20:42:53.829][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 20:42:53.830][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 20:42:53.831][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 20:42:53.832][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 20:42:53.834][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:53.835][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:53.836][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 20:42:53.837][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 20:42:53.838][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 20:42:53.840][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 20:42:53.841][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 20:42:53.842][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 20:42:53.843][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 20:42:53.845][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 20:42:53.846][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 20:42:53.847][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 20:42:53.848][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 20:42:53.850][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 20:42:53.851][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 20:42:53.852][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 20:42:53.853][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 20:42:53.855][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 20:42:53.856][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 20:42:53.857][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 20:42:53.858][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.859][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.877][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[2025-03-06 20:42:53.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.882][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[2025-03-06 20:42:53.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.900][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[2025-03-06 20:42:53.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.916][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[2025-03-06 20:42:53.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 20:42:53.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:53.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:53.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:53.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:53.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:53.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 20:42:53.960][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 20:42:53.962][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 20:42:53.963][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.964][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.965][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.966][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 20:42:53.967][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.968][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.969][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.970][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 20:42:53.970][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 20:42:53.971][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 20:42:53.972][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.973][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 20:42:53.974][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 20:42:53.975][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 20:42:53.976][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 20:42:53.977][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 20:42:53.977][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 20:42:53.977][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 20:42:53.978][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 20:42:53.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.980][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 20:42:53.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 20:42:53.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 20:42:53.983][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 20:42:53.983][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 20:42:53.983][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 20:42:53.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 20:42:53.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 20:42:53.986][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 20:42:53.987][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 20:42:53.987][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 20:42:53.988][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 20:42:53.989][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 20:42:53.991][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 20:42:53.992][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 20:42:53.993][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 20:42:53.995][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 20:42:53.998][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 20:42:53.999][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 20:42:54.000][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 20:42:54.001][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 20:42:54.002][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:54.003][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 20:42:54.004][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 20:42:54.005][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 20:42:54.006][biodb::testThat]
biodb.INFO [2025-03-06 20:42:54.007][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-06 20:42:54.008][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 20:42:54.009][biodb::testThat]
biodb.DEBUG[2025-03-06 20:42:54.012][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 20:42:54.015][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:54.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 20:42:54.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:54.018][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 20:42:54.021][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[2025-03-06 20:42:54.024][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 20:42:54.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-06 20:42:54.026][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:54.028][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-06 20:42:54.031][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-06 20:42:54.032][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 20:42:54.033][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-06 20:42:54.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 20:42:54.037][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-03-06 20:42:54.038][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 20:42:54.039][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 20:42:54.040][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 20:42:54.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 20:42:54.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:54.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:54.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:54.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:54.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:54.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 20:42:54.054][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.055][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.056][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:54.063][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:54.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.064][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.066][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 20:42:54.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 20:42:54.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.069][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:54.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:54.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.072][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 20:42:54.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 20:42:54.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 20:42:54.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 20:42:54.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 20:42:54.082][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 20:42:54.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.084][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:54.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:54.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.091][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.093][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:54.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 20:42:54.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:54.097][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:54.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.099][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.100][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 20:42:54.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 20:42:54.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.104][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:54.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:54.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:54.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 20:42:54.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.111][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:54.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:54.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.116][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 20:42:54.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 20:42:54.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.119][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:54.120][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:54.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.122][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 20:42:54.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 20:42:54.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.127][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:54.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:54.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.129][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.131][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 20:42:54.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 20:42:54.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 20:42:54.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 20:42:54.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 20:42:54.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 20:42:54.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 20:42:54.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 20:42:54.170][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-06 20:42:54.173][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 20:42:54.174][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 20:42:54.175][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 20:42:54.176][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 20:42:54.177][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 20:42:54.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 20:42:54.178][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 20:42:54.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 20:42:54.180][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 20:42:54.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
>
> proc.time()
user system elapsed
14.659 0.501 17.586
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.940 | 0.095 | 1.966 | |
| ChebiEntry | 0.134 | 0.005 | 0.139 | |