| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-09-20 12:03 -0400 (Sat, 20 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4814 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4603 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4547 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4553 |
| 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 207/2333 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.15.1 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | ERROR | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
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: 1.15.1 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz |
| StartedAt: 2025-09-19 21:30:43 -0400 (Fri, 19 Sep 2025) |
| EndedAt: 2025-09-19 21:32:12 -0400 (Fri, 19 Sep 2025) |
| EllapsedTime: 89.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: biodbChebi.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* 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 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* 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’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
3. └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(nchar(content) > 0)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted
* 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: 1 ERROR
See
‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck/00check.log’
for details.
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.15.1’ ** 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.fail
R version 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
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 [2025-09-19 21:31:36.968][biodb::testContext]
biodb.INFO [2025-09-19 21:31:36.971][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:36.972][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-19 21:31:36.973][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:36.975][biodb::testContext]
biodb.INFO [2025-09-19 21:31:36.983][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:36.986][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:36.996][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:36.997][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-19 21:31:36.998][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.003][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-19 21:31:37.029][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.034][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-19 21:31:37.035][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.040][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-19 21:31:37.041][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-19 21:31:37.042][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-19 21:31:37.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.047][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-19 21:31:37.048][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-19 21:31:37.050][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.055][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-19 21:31:37.056][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-19 21:31:37.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.075][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.DEBUG[2025-09-19 21:31:37.077][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-19 21:31:37.078][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-19 21:31:37.079][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-19 21:31:37.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.084][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-19 21:31:37.085][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.090][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-19 21:31:37.091][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-19 21:31:37.093][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-19 21:31:37.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.099][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:37.101][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-19 21:31:37.102][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-19 21:31:37.104][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-19 21:31:37.105][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-19 21:31:37.107][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-19 21:31:37.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.121][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-19 21:31:37.123][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-19 21:31:37.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.131][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-19 21:31:37.134][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-19 21:31:37.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.143][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-19 21:31:37.144][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-19 21:31:37.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.149][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-19 21:31:37.150][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-19 21:31:37.152][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-19 21:31:37.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.156][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:37.158][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-19 21:31:37.164][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-19 21:31:37.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.174][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-19 21:31:37.175][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-19 21:31:37.176][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-19 21:31:37.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.183][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-19 21:31:37.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.241][self$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[2025-09-19 21:31:37.242][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:37.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.248][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.249][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:37.250][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:37.251][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.252][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-19 21:31:37.253][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:37.255][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.256][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.257][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:37.257][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:37.257][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:37.257][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:37.257][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:37.259][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:37.260][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:37.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.266][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.267][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.269][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:37.270][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:37.271][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.273][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.275][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-19 21:31:37.277][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.279][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:37.280][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:37.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.285][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.286][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.288][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.289][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:37.291][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:37.292][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.294][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-19 21:31:37.295][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:37.297][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.298][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.300][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:37.300][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:37.300][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:37.300][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:37.300][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:37.301][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:37.303][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.304][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.305][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:37.307][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.308][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.310][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.311][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.312][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:37.314][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:37.315][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.316][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.318][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-19 21:31:37.320][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.321][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-19 21:31:37.326][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.327][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:37.328][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.332][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.333][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.334][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.335][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:37.336][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:37.337][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.342][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-19 21:31:37.343][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:37.349][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.350][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.351][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.352][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:37.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.356][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:37.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.361][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:37.363][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:37.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.366][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.367][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-19 21:31:37.369][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.370][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:37.371][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.373][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:37.374][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.375][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.376][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.377][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.378][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:37.379][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:37.380][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.381][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-19 21:31:37.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:37.384][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.391][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.392][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.393][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:37.394][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:37.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.400][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.401][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:37.402][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:37.403][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.404][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:37.409][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:37.410][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.436][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[2025-09-19 21:31:37.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.461][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[2025-09-19 21:31:37.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.476][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.DEBUG[2025-09-19 21:31:37.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.486][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[2025-09-19 21:31:37.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.493][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-19 21:31:37.498][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-19 21:31:37.500][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-19 21:31:37.502][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-19 21:31:37.503][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:37.505][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-19 21:31:37.506][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:37.508][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:37.509][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-19 21:31:37.511][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-19 21:31:37.513][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:37.514][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-19 21:31:37.516][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:37.517][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:37.519][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-19 21:31:37.520][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-19 21:31:37.522][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-19 21:31:37.524][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-19 21:31:37.525][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:37.527][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-19 21:31:37.528][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-19 21:31:37.530][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-19 21:31:37.531][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-19 21:31:37.533][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-19 21:31:37.535][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-19 21:31:37.536][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-19 21:31:37.538][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-19 21:31:37.539][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-19 21:31:37.541][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-19 21:31:37.543][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-19 21:31:37.544][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-19 21:31:37.546][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-19 21:31:37.547][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-19 21:31:37.549][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-19 21:31:37.551][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-19 21:31:37.552][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-19 21:31:37.554][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-19 21:31:37.555][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-19 21:31:37.557][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-19 21:31:37.558][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-19 21:31:37.560][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-19 21:31:37.562][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-19 21:31:37.563][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-19 21:31:37.565][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-19 21:31:37.566][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-19 21:31:37.568][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-19 21:31:37.569][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-19 21:31:37.571][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-19 21:31:37.574][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-19 21:31:37.576][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-19 21:31:37.577][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-19 21:31:37.579][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-19 21:31:37.581][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-19 21:31:37.583][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-19 21:31:37.584][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-19 21:31:37.586][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-19 21:31:37.588][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-19 21:31:37.590][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-19 21:31:37.591][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-19 21:31:37.593][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-19 21:31:37.595][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-19 21:31:37.597][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-19 21:31:37.598][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-19 21:31:37.600][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-19 21:31:37.602][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-19 21:31:37.604][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-19 21:31:37.605][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:37.607][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:37.609][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-19 21:31:37.610][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-19 21:31:37.612][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-19 21:31:37.614][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-19 21:31:37.616][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-19 21:31:37.617][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-19 21:31:37.619][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-19 21:31:37.621][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-19 21:31:37.623][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-19 21:31:37.624][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-19 21:31:37.626][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-19 21:31:37.628][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-19 21:31:37.630][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-19 21:31:37.631][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-19 21:31:37.633][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-19 21:31:37.650][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-19 21:31:37.653][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:37.657][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:37.659][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.661][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.662][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[2025-09-19 21:31:37.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.691][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[2025-09-19 21:31:37.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.706][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[2025-09-19 21:31:37.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.714][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[2025-09-19 21:31:37.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.753][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[2025-09-19 21:31:37.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.777][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[2025-09-19 21:31:37.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:37.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:37.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:37.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:37.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:37.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:37.795][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:37.807][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-19 21:31:37.810][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.812][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.813][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.815][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:37.816][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.817][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.818][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.820][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-19 21:31:37.821][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-19 21:31:37.822][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:37.823][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.825][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-19 21:31:37.826][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-19 21:31:37.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-19 21:31:37.829][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:37.830][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:37.830][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:37.830][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:37.831][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-19 21:31:37.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:37.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:37.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:37.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:37.840][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-19 21:31:37.840][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-19 21:31:37.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:37.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:37.843][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:37.844][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-19 21:31:37.844][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-19 21:31:37.853][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:37.855][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:37.858][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-19 21:31:37.859][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:37.861][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:37.863][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:37.896][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-19 21:31:37.918][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-19 21:31:37.930][biodb::testThat]
biodb.INFO [2025-09-19 21:31:37.932][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-09-19 21:31:37.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:37.934][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:37.967][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-19 21:31:37.970][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:37.979][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:37.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:37.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:37.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:38.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:38.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:38.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:38.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:38.025][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.029][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.052][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.054][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.056][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.099][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:38.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:38.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.112][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:38.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:38.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.129][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.130][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.133][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.135][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.140][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:38.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:38.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.152][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.162][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.164][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.171][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:38.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:38.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:38.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:38.334][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-19 21:31:38.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:38.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:38.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:38.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:38.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:38.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:38.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:38.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:38.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.437][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:38.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:38.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.444][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:38.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.600][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.602][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.604][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:38.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:38.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:38.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.686][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.688][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:38.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:38.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.731][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.736][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:38.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.776][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.778][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.781][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:38.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.824][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:38.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.870][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.877][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.878][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.882][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.883][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:38.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:38.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.904][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.911][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.918][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.925][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.965][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.971][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.976][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:38.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:38.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:38.996][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.019][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.022][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.064][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.068][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.070][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.112][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.113][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.116][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.186][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.192][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.199][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:39.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:39.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:39.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:39.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.216][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.224][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.225][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.229][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.238][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.261][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.263][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.267][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.280][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.288][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-19 21:31:39.290][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:39.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.294][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.302][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.307][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.317][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.320][ef$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:39.333][biodb::testThat]
biodb.INFO [2025-09-19 21:31:39.334][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-19 21:31:39.336][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:39.338][biodb::testThat]
biodb.DEBUG[2025-09-19 21:31:39.363][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-19 21:31:39.366][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:39.372][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:39.382][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-19 21:31:39.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:39.430][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:39.432][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:39.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:39.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:39.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:39.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:39.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:39.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:39.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:39.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.457][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.498][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:39.500][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:39.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.502][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.504][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:39.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:39.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.509][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:39.510][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:39.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.512][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.519][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.520][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:39.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.531][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.532][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.535][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:39.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.549][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.556][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.566][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:39.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.570][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.581][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.584][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.597][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.607][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:39.608][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:39.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:39.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.620][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:39.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:39.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:39.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:39.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:39.699][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-19 21:31:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-19 21:31:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-19 21:31:39.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-19 21:31:39.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-19 21:31:39.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-19 21:31:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-19 21:31:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:39.730][biodb::testThat]
biodb.INFO [2025-09-19 21:31:39.731][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-19 21:31:39.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:39.734][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:39.738][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.742][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:39.744][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-19 21:31:39.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:39.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:39.804][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-19 21:31:39.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-19 21:31:39.838][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:39.845][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-19 21:31:39.847][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:39.872][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".
fscache.INFO [2025-09-19 21:31:39.912][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:39.921][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:39.925][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:39.932][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-19 21:31:39.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:39.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.970][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:39.972][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:39.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:39.977][ef$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:39.983][biodb::testThat]
biodb.INFO [2025-09-19 21:31:39.984][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-09-19 21:31:39.985][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:39.986][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:40.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:40.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:40.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:40.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:40.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:40.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:40.158][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".
fscache.INFO [2025-09-19 21:31:40.161][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:40.166][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:40.167][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-19 21:31:40.186][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.187][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-09-19 21:31:40.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:40.190][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:40.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:40.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:40.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:40.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:40.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.247][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.257][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:40.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:40.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:40.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:40.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:40.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:40.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:40.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-19 21:31:40.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-19 21:31:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:40.353][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:40.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-19 21:31:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:40.363][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.364][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-19 21:31:40.365][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:40.367][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.375][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.376][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-19 21:31:40.377][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:40.378][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.385][biodb::testThat]
biodb.INFO [2025-09-19 21:31:40.386][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-19 21:31:40.387][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:40.388][biodb::testThat]
biodb.DEBUG[2025-09-19 21:31:40.392][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-19 21:31:40.972][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440 does not exist.
sched.TRACE[2025-09-19 21:31:40.974][sched::get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-09-19 21:31:40.975][sched::get_url_request_result] URL "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-09-19 21:31:40.976][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-19 21:31:41.811][biodb::testThat]
biodb.INFO [2025-09-19 21:31:41.812][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-19 21:31:41.813][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:41.814][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:41.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:41.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:41.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:41.824][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:41.825][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:41.826][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:41.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:41.828][ef$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:41.830][biodb::testThat]
biodb.INFO [2025-09-19 21:31:41.832][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-09-19 21:31:41.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:41.834][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:41.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:41.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:41.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:41.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:41.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:41.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:41.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:41.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:41.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:41.944][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".
fscache.INFO [2025-09-19 21:31:41.947][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:41.951][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:41.952][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:42.054][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".
fscache.INFO [2025-09-19 21:31:42.057][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:42.061][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:42.062][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-19 21:31:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-19 21:31:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-19 21:31:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:42.120][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".
fscache.INFO [2025-09-19 21:31:42.123][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:42.129][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-19 21:31:42.130][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:42.151][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-19 21:31:42.212][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:42.214][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:42.220][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-19 21:31:42.224][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.225][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:42.227][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:42.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:42.242][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.244][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.246][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.252][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:42.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:42.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.255][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:42.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.262][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:42.263][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:42.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:42.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:42.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:42.273][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:42.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.275][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:42.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.285][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.291][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.292][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.294][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.295][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:42.297][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.320][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.323][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.330][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.331][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:42.340][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:42.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.342][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:42.393][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-19 21:31:42.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:42.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:42.423][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:42.429][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-19 21:31:42.430][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:42.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:42.517][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-19 21:31:42.518][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:42.520][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:42.527][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-19 21:31:42.532][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.534][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:42.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:42.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:42.551][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.554][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.561][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:42.562][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:42.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.564][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.565][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:42.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:42.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:42.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:42.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.574][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.580][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:42.581][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:42.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.583][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:42.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:42.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.590][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.604][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:42.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:42.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.615][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.617][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.623][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.639][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.640][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.644][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:42.650][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:42.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.652][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:42.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:42.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:42.707][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-19 21:31:42.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:42.741][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".
fscache.INFO [2025-09-19 21:31:42.743][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:42.747][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:42.749][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:42.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:42.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.795][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[2025-09-19 21:31:42.796][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-19 21:31:42.797][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:42.799][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:42.806][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-19 21:31:42.807][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:42.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:42.810][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:42.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:42.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:42.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:42.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:42.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:42.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:42.822][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.TRACE[2025-09-19 21:31:42.825][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.829][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.836][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:42.837][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:42.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.841][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:42.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:42.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.844][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:42.847][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:42.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.851][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.852][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:42.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.856][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:42.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.861][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:42.863][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:42.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.871][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:42.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.878][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.886][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:42.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.899][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.904][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.908][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:42.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:42.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.923][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:42.924][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:42.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:42.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:42.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:42.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:42.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.001][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-19 21:31:43.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:43.071][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-19 21:31:43.072][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:43.073][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:43.082][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-19 21:31:43.087][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:43.088][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:43.090][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:43.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:43.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.118][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.127][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.135][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.138][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.142][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.143][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.147][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.148][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.149][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.151][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.157][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.167][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.175][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.177][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.178][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.183][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.232][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-19 21:31:43.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.267][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.DEBUG[2025-09-19 21:31:43.268][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-19 21:31:43.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:43.271][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:43.276][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-19 21:31:43.277][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:43.278][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:43.280][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:43.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:43.296][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.297][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.307][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.309][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.311][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.322][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.325][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.327][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.328][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.330][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.332][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.334][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.338][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.342][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.345][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.350][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.352][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.357][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.365][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.366][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.369][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.375][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.436][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-19 21:31:43.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:43.496][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-19 21:31:43.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:43.500][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:43.507][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-19 21:31:43.509][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:43.511][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:43.512][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:43.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:43.532][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.534][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.544][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.551][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.557][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.561][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.569][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.571][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.573][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.579][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.581][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.583][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.590][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.591][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.595][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.600][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.632][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.633][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.636][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.637][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.642][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.719][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-19 21:31:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:43.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:43.753][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-19 21:31:43.755][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:43.757][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:43.770][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-19 21:31:43.772][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:43.776][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:43.778][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:43.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:43.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:43.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:43.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:43.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:43.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:43.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:43.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.824][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.843][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.859][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:43.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:43.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.866][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:43.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.878][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.880][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.882][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:43.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.890][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.897][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.900][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:43.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.909][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.911][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:43.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.918][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.920][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.924][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:43.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:43.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.931][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.934][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:43.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.941][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.943][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.945][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:43.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:43.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.959][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:43.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:43.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:43.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:43.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:43.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:43.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:43.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:43.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:43.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.031][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-19 21:31:44.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:44.072][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-19 21:31:44.073][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:44.076][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:44.086][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-19 21:31:44.087][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:44.089][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:44.093][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:44.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:44.135][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.137][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.139][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.145][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.146][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.150][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.155][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.156][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.164][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.167][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.177][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.178][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.181][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.190][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.191][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.196][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.210][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.211][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.220][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.221][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.223][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.224][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.229][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.230][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.290][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-19 21:31:44.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.315][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[2025-09-19 21:31:44.317][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-19 21:31:44.318][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:44.319][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:44.324][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-19 21:31:44.326][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:44.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:44.328][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:44.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:44.343][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.344][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.346][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.353][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.356][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.362][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.363][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.365][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.371][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.381][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.382][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.416][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.424][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.426][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.427][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.428][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.431][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.432][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.440][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.446][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.470][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.536][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-19 21:31:44.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:44.562][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-19 21:31:44.564][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:44.565][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:44.579][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-19 21:31:44.581][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:44.582][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:44.584][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:44.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:44.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.602][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.608][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.609][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.612][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.621][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.635][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.636][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.639][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.647][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.656][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.657][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.662][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.667][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.680][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.687][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.688][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.698][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.699][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:44.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:44.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.709][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.710][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:44.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:44.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:44.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.795][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-19 21:31:44.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:44.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:44.835][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-19 21:31:44.837][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:44.840][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:44.854][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-19 21:31:44.855][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:44.860][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:44.862][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:44.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:44.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:44.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:44.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:44.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:44.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:44.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:44.891][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.893][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:44.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.909][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.914][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.916][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.918][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:44.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:44.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.927][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.931][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:44.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:44.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.939][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.940][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.943][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:44.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:44.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.955][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.962][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:44.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.968][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.970][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.972][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:44.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:44.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.988][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:44.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:44.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:44.998][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:44.999][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.001][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.007][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.010][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.012][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.018][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.020][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.079][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-19 21:31:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:45.106][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-19 21:31:45.107][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:45.109][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:45.121][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-19 21:31:45.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:45.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:45.126][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:45.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:45.147][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.151][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.157][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.158][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.160][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.162][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.170][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:45.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:45.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.179][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:45.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:45.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.185][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.195][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.196][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.198][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.200][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.203][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.219][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.228][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.230][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.238][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.307][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-19 21:31:45.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.332][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[2025-09-19 21:31:45.334][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-19 21:31:45.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:45.337][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:45.341][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-19 21:31:45.343][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:45.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:45.350][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:45.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:45.380][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.382][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.398][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.405][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.420][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.423][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.437][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:45.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:45.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.443][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.449][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.452][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.455][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.462][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.464][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.473][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.508][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.509][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.519][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.541][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.552][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.553][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.562][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.566][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.630][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-19 21:31:45.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:45.656][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-19 21:31:45.658][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:45.659][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:45.665][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-19 21:31:45.666][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:45.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:45.673][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:45.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:45.703][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.705][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.721][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.732][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:45.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.750][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.751][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.753][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:45.785][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:45.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.787][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:45.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.797][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.798][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.804][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.810][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.811][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.818][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:45.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.823][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.828][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:45.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.848][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.849][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:45.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:45.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.875][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.876][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.881][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.883][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:45.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:45.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:45.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:45.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:45.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:45.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.938][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-19 21:31:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:45.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:45.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:45.964][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-19 21:31:45.972][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:45.974][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:45.982][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-19 21:31:45.984][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:45.986][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:45.987][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:45.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:45.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:45.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:45.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:45.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:45.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.000][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[2025-09-19 21:31:46.002][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.006][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.012][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.017][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.021][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.025][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.034][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.040][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.043][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.049][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.050][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.053][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.054][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.055][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.059][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.065][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.073][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.076][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.083][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.084][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.086][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.087][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.092][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.095][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.153][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-19 21:31:46.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:46.202][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-19 21:31:46.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:46.209][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:46.215][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-19 21:31:46.220][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:46.222][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:46.227][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:46.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:46.250][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.251][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.253][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.267][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.271][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.285][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.286][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.312][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.323][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.324][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.330][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.340][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.341][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.351][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.355][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.356][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.361][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.364][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.370][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.379][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.380][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.398][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.399][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.406][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.515][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-19 21:31:46.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:46.551][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-19 21:31:46.552][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:46.554][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:46.567][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-19 21:31:46.568][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:46.569][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:46.574][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:46.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.607][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[2025-09-19 21:31:46.610][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.612][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.621][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.631][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.632][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.635][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.636][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.642][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.643][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.656][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.663][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.668][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.669][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.671][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.678][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.679][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.689][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.692][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.701][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.705][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.710][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.788][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-19 21:31:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:46.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:46.824][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-19 21:31:46.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:46.831][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:46.839][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-19 21:31:46.840][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:46.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:46.843][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:46.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:46.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:46.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:46.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:46.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:46.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:46.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:46.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.883][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.884][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.886][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.888][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:46.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.893][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.894][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.903][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:46.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:46.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.912][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:46.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.923][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:46.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.926][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.928][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.931][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:46.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:46.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.942][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.946][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.954][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.962][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.963][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.965][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:46.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:46.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.971][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.972][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.975][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.976][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:46.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:46.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:46.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.028][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-19 21:31:47.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:47.055][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-19 21:31:47.057][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:47.058][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:47.063][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-19 21:31:47.064][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:47.066][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:47.067][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:47.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:47.088][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.089][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.092][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.098][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.099][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.107][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.108][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.110][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.112][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.116][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.118][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.120][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.126][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.127][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.139][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.140][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.153][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.179][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.181][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.240][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-19 21:31:47.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:47.266][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-19 21:31:47.267][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:47.269][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:47.276][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-19 21:31:47.281][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:47.283][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:47.284][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:47.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:47.314][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.319][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.321][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.337][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.339][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.342][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.344][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.354][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.359][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.361][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.369][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.371][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.377][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.378][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.386][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.390][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.391][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.392][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.394][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.396][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.400][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.402][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.416][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.417][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.420][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.426][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.427][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.430][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.432][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.438][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.441][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.508][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-19 21:31:47.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:47.542][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-19 21:31:47.544][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:47.546][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:47.553][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-19 21:31:47.554][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:47.555][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:47.556][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:47.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.569][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.TRACE[2025-09-19 21:31:47.571][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.575][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.588][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.592][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.598][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.601][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:47.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.607][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:47.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:47.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.617][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.618][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.620][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:47.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.626][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.627][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:47.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.629][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.631][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.632][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.634][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.635][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.640][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.641][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.643][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:47.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.649][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.651][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:47.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.661][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:47.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.673][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.675][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:47.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:47.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:47.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:47.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:47.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.752][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-19 21:31:47.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:47.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:47.836][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:47.841][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:47.843][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:47.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:47.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:47.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:47.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:47.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:47.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:47.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:47.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:47.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:47.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:47.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:48.681][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:48.684][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:48.690][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-19 21:31:48.691][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:48.704][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:48.707][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:48.714][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-19 21:31:48.716][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:48.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:48.747][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-19 21:31:48.748][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:48.750][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:48.760][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-19 21:31:48.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:48.763][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:48.764][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:48.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.779][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.783][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.789][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:48.790][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:48.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.792][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:48.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:48.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.798][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:48.799][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:48.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.802][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:48.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:48.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:48.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:48.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.811][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:48.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:48.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.817][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:48.818][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:48.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:48.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.826][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:48.827][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:48.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.829][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:48.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:48.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.836][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:48.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.840][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:48.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:48.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.855][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:48.856][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:48.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.858][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:48.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:48.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.864][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:48.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:48.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.868][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.875][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:48.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:48.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.881][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:48.882][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:48.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.884][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:48.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:48.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:48.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:48.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:48.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.935][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-19 21:31:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:48.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:48.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:48.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:48.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:48.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:48.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:48.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:48.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:48.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:48.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:48.986][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[2025-09-19 21:31:48.987][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-19 21:31:48.988][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:48.990][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:48.998][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-19 21:31:49.003][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:49.004][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:49.006][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:49.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.050][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.052][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.054][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.060][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:49.061][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:49.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.063][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.065][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:49.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:49.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.070][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:49.071][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:49.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.073][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:49.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:49.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.079][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:49.080][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:49.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.082][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.083][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:49.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:49.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:49.090][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:49.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.092][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:49.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:49.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:49.100][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:49.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.102][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.103][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:49.104][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:49.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.108][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:49.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:49.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.113][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.114][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.116][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.122][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:49.123][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:49.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:49.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:49.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.131][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:49.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:49.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.135][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:49.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:49.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.141][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:49.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:49.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.144][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:49.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:49.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:49.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:49.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:49.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.203][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-19 21:31:49.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:49.237][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:49.240][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:49.244][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:49.245][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:49.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:49.846][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:49.849][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:49.853][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-19 21:31:49.854][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:49.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:49.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:49.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:49.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:49.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:49.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:49.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:49.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:49.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:49.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:49.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:49.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:50.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.547][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:50.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:50.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:50.561][biodb::testThat]
biodb.INFO [2025-09-19 21:31:50.563][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-19 21:31:50.564][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:50.565][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:50.568][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-19 21:31:50.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-19 21:31:50.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:50.618][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:50.623][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:50.626][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-19 21:31:50.627][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:50.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:50.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:50.669][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:50.672][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-19 21:31:50.673][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:50.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:50.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:50.743][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:50.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.781][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:50.783][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:50.784][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:50.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.791][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.797][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.800][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.806][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.807][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:50.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.841][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-19 21:31:50.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.857][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[2025-09-19 21:31:50.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.872][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:50.873][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:50.874][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:50.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.882][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.883][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.888][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.891][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.898][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:50.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.917][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:50.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:50.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:50.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:50.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:50.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:50.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:50.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:50.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.956][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:50.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:50.959][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:50.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.972][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.975][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:50.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.981][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.983][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:50.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:50.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:50.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.002][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-19 21:31:51.003][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:51.005][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:51.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:51.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:51.157][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:51.161][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:51.165][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-19 21:31:51.166][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:51.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:51.179][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:51.185][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-19 21:31:51.187][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:51.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:51.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:51.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:51.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:51.310][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:51.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.363][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:51.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:51.365][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:51.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.371][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.374][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.376][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.377][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.378][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.383][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.384][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:51.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.412][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-19 21:31:51.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.489][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:51.490][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:51.492][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:51.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.495][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.499][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.502][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.505][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.506][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.524][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.527][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.531][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:51.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.560][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:51.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.588][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.590][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:51.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:51.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:51.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.603][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.606][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.609][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:51.610][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.615][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.616][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:51.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:51.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.636][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-19 21:31:51.637][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:51.639][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:51.651][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:51.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:51.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:51.662][biodb::testThat]
biodb.INFO [2025-09-19 21:31:51.663][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-19 21:31:51.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:51.666][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:51.670][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-19 21:31:51.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-19 21:31:51.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:51.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:51.722][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:51.965][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:51.968][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-19 21:31:51.970][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:51.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:51.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:51.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:51.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:51.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:51.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:51.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:51.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:51.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:51.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:51.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:52.002][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:52.005][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:52.008][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-19 21:31:52.009][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:52.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.063][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:52.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.086][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.087][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.088][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.093][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.098][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.100][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.102][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.104][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.105][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.121][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-19 21:31:52.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.133][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.TRACE[2025-09-19 21:31:52.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.145][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.147][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.148][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.159][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.160][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.161][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.167][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.184][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:52.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.209][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.210][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.211][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.213][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.214][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.217][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.219][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.228][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.235][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.236][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-19 21:31:52.260][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:52.261][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:52.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:52.325][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:52.329][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:52.332][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-19 21:31:52.334][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:52.338][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:52.343][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:52.347][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-19 21:31:52.348][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:52.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:52.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.468][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:52.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.497][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.498][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.500][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.507][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.510][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.513][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.516][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.521][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.523][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.542][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-19 21:31:52.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.558][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.TRACE[2025-09-19 21:31:52.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.572][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.573][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.575][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.579][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.581][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.585][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.587][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.592][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.593][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.622][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:52.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.669][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.670][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.671][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.673][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.695][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.697][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.703][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.718][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-19 21:31:52.719][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:52.720][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:52.730][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:52.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:52.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:52.737][biodb::testThat]
biodb.INFO [2025-09-19 21:31:52.739][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-19 21:31:52.740][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:52.741][biodb::testThat]
biodb.TRACE[2025-09-19 21:31:52.744][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-19 21:31:52.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-19 21:31:52.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:52.785][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:52.788][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:52.790][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-19 21:31:52.791][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:52.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-19 21:31:52.821][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:52.824][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:52.826][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-19 21:31:52.827][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:52.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:52.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:52.881][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:52.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:52.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.905][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.917][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.920][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.926][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.948][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-19 21:31:52.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:52.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:52.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:52.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:52.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:52.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:52.959][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.TRACE[2025-09-19 21:31:52.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.971][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:52.972][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:52.973][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:52.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.977][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.979][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.983][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.986][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:52.987][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.990][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.991][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:52.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:52.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.006][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:53.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.029][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.030][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:53.031][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:53.032][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:53.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.038][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.042][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.049][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:53.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.065][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-19 21:31:53.066][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:53.067][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:53.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:53.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:53.126][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:53.128][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-19 21:31:53.129][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:53.132][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:53.135][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:53.138][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-19 21:31:53.139][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:53.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.217][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-19 21:31:53.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.242][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:53.243][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:53.244][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:53.245][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.256][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.261][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.262][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:53.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.278][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-19 21:31:53.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.290][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[2025-09-19 21:31:53.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.301][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:53.302][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:53.303][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:53.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.309][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.316][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.321][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:53.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.337][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-19 21:31:53.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.368][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-19 21:31:53.369][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-19 21:31:53.370][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-19 21:31:53.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.381][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.382][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-19 21:31:53.383][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.387][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.388][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-19 21:31:53.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-19 21:31:53.404][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-19 21:31:53.405][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-19 21:31:53.428][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:53.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-19 21:31:53.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:53.436][biodb::testThat]
biodb.INFO [2025-09-19 21:31:53.437][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-09-19 21:31:53.438][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:53.439][biodb::testThat]
biodb.DEBUG[2025-09-19 21:31:53.441][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-19 21:31:53.442][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:53.444][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:53.450][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-19 21:31:53.451][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:53.452][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:53.454][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:53.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.468][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.470][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.478][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:53.479][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:53.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.482][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:53.484][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:53.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.486][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.487][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:53.489][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:53.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.492][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.493][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.495][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.500][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.502][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:53.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:53.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.505][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.506][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.510][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.511][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:53.512][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:53.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.514][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.516][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:53.517][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:53.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.519][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.521][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:53.522][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:53.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.524][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.571][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-19 21:31:53.572][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-19 21:31:53.581][biodb::testThat]
biodb.INFO [2025-09-19 21:31:53.582][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-19 21:31:53.584][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:53.585][biodb::testThat]
biodb.DEBUG[2025-09-19 21:31:53.598][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-19 21:31:53.599][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-19 21:31:53.601][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-19 21:31:53.603][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:53.607][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-19 21:31:53.611][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-19 21:31:53.623][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-19 21:31:53.625][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:53.626][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-19 21:31:53.628][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:53.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.643][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.644][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.646][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.652][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:53.653][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:53.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.656][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.657][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:53.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:53.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.662][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:53.663][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:53.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.667][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.668][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.673][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.676][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:53.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:53.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.679][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.680][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.681][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.684][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.685][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:53.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:53.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.688][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.690][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:53.691][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:53.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.693][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.695][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:53.696][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:53.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.698][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:53.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:53.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:53.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:53.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:53.744][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.747][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.753][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:53.755][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:53.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.757][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.758][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:53.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:53.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.763][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:53.764][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:53.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.766][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:53.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:53.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:53.780][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:53.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.782][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:53.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.794][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.795][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:53.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.814][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.822][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:53.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.835][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:53.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:53.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.842][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:53.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:53.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.849][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.856][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:53.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.870][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:53.871][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:53.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:53.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.890][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:53.892][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:53.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.898][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:53.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:53.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:53.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:53.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:53.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:53.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:53.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:53.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:53.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:53.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:53.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:53.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:53.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:54.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:54.015][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.023][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.034][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:54.037][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:54.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:54.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:54.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.049][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:54.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:54.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.052][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.053][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:54.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:54.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.058][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:54.059][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:54.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.062][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:54.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:54.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:54.069][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:54.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.071][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:54.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:54.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.077][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:54.079][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:54.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.081][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:54.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:54.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.087][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:54.088][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:54.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.090][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.092][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:54.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.098][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.106][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:54.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:54.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.109][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:54.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:54.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.115][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:54.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:54.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.119][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:54.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:54.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.125][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:54.126][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:54.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.128][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.129][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:54.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:54.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:54.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:54.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:54.236][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-19 21:31:54.237][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-19 21:31:54.238][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-19 21:31:54.252][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.253][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-09-19 21:31:54.254][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:54.255][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.282][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.283][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-09-19 21:31:54.284][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:54.285][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.294][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.295][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-09-19 21:31:54.296][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:54.297][biodb::testThat]
sched.DEBUG[2025-09-19 21:31:54.300][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:54.303][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:54.317][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-19 21:31:54.319][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-19 21:31:54.344][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:54.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:54.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:54.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.358][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:54.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:54.365][ef$get] fields variable is a list.
biodb.INFO [2025-09-19 21:31:54.366][biodb::testThat]
biodb.INFO [2025-09-19 21:31:54.367][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-19 21:31:54.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:54.370][biodb::testThat]
biodb.ERROR[2025-09-19 21:31:54.413][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-19 21:31:54.435][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-19 21:31:54.448][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-19 21:31:54.450][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-19 21:31:54.451][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-19 21:31:54.452][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:54.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:54.454][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.456][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-19 21:31:54.468][biodb::testContext]
biodb.INFO [2025-09-19 21:31:54.469][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:54.471][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-19 21:31:54.472][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:54.473][biodb::testContext]
biodb.INFO [2025-09-19 21:31:54.475][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:54.477][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:54.481][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:54.483][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-19 21:31:54.484][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.488][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-19 21:31:54.489][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.493][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-19 21:31:54.494][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.498][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-19 21:31:54.499][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-19 21:31:54.501][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-19 21:31:54.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.505][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-19 21:31:54.506][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-19 21:31:54.507][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.514][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[2025-09-19 21:31:54.519][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-19 21:31:54.520][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-19 21:31:54.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.528][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-19 21:31:54.529][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-19 21:31:54.531][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-19 21:31:54.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.541][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-19 21:31:54.542][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.550][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-19 21:31:54.555][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-19 21:31:54.557][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-19 21:31:54.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.565][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:54.566][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-19 21:31:54.567][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-19 21:31:54.568][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-19 21:31:54.570][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-19 21:31:54.571][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-19 21:31:54.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.575][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-19 21:31:54.577][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-19 21:31:54.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.582][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-19 21:31:54.583][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-19 21:31:54.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.587][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-19 21:31:54.589][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-19 21:31:54.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.593][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-19 21:31:54.594][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-19 21:31:54.596][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-19 21:31:54.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.600][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:54.601][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-19 21:31:54.611][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-19 21:31:54.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.615][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-19 21:31:54.616][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-19 21:31:54.618][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-19 21:31:54.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.622][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-19 21:31:54.624][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.625][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-19 21:31:54.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:54.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.632][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.633][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:54.635][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:54.636][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.637][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-19 21:31:54.638][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:54.639][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.640][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.641][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:54.641][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:54.641][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:54.641][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:54.641][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:54.643][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:54.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.646][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:54.647][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.648][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.649][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.650][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.652][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:54.653][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:54.654][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.655][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.656][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-19 21:31:54.658][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.660][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:54.661][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.662][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:54.663][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.664][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.665][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.666][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.667][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:54.669][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:54.670][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.671][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-19 21:31:54.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:54.673][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.674][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.676][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:54.676][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:54.676][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:54.676][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:54.676][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:54.677][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:54.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.680][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:54.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.683][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.684][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.685][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:54.686][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:54.688][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.689][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.690][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-19 21:31:54.692][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.693][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-19 21:31:54.695][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.696][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:54.697][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.698][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.699][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.704][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.705][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:54.707][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:54.708][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.709][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-19 21:31:54.710][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:54.715][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.716][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.717][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:54.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.722][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:54.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.725][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.726][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.727][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:54.728][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:54.729][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.731][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.732][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-19 21:31:54.734][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.735][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:54.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.737][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:54.739][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.740][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.741][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.742][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.743][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:54.744][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:54.745][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.746][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-19 21:31:54.748][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:54.749][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.750][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:54.751][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.752][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:54.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.755][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:54.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:54.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:54.759][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:54.760][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:54.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:54.763][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:54.764][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:54.766][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:54.767][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.774][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[2025-09-19 21:31:54.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.790][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[2025-09-19 21:31:54.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.835][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[2025-09-19 21:31:54.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:54.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:54.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:54.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:54.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:54.910][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-19 21:31:54.912][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-19 21:31:54.915][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-19 21:31:54.917][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-19 21:31:54.919][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:54.921][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-19 21:31:54.923][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:54.925][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:54.926][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-19 21:31:54.928][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-19 21:31:54.930][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:54.932][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-19 21:31:54.934][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:54.936][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:54.938][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-19 21:31:54.940][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-19 21:31:54.942][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-19 21:31:54.944][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-19 21:31:54.945][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:54.947][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-19 21:31:54.949][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-19 21:31:54.951][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-19 21:31:54.953][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-19 21:31:54.955][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-19 21:31:54.957][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-19 21:31:54.959][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-19 21:31:54.960][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-19 21:31:54.962][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-19 21:31:54.964][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-19 21:31:54.966][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-19 21:31:54.968][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-19 21:31:54.970][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-19 21:31:54.972][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-19 21:31:54.974][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-19 21:31:54.976][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-19 21:31:54.977][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-19 21:31:54.979][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-19 21:31:54.981][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-19 21:31:54.983][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-19 21:31:54.985][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-19 21:31:54.987][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-19 21:31:54.989][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-19 21:31:54.990][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-19 21:31:54.992][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-19 21:31:54.994][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-19 21:31:54.996][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-19 21:31:54.998][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-19 21:31:55.000][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-19 21:31:55.002][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-19 21:31:55.004][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-19 21:31:55.005][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-19 21:31:55.007][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-19 21:31:55.009][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-19 21:31:55.011][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-19 21:31:55.013][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-19 21:31:55.015][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-19 21:31:55.016][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-19 21:31:55.018][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-19 21:31:55.020][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-19 21:31:55.022][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-19 21:31:55.024][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-19 21:31:55.026][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-19 21:31:55.027][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-19 21:31:55.029][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-19 21:31:55.031][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-19 21:31:55.033][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-19 21:31:55.035][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:55.037][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:55.039][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-19 21:31:55.041][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-19 21:31:55.043][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-19 21:31:55.045][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-19 21:31:55.047][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-19 21:31:55.049][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-19 21:31:55.052][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-19 21:31:55.054][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-19 21:31:55.057][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-19 21:31:55.059][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-19 21:31:55.062][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-19 21:31:55.065][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-19 21:31:55.067][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-19 21:31:55.069][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-19 21:31:55.071][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-19 21:31:55.073][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-19 21:31:55.075][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:55.077][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:55.078][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.081][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.109][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[2025-09-19 21:31:55.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.231][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:55.233][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-19 21:31:55.236][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.238][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.239][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.241][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:55.242][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.244][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.245][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.247][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-19 21:31:55.248][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-19 21:31:55.250][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:55.251][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.253][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-19 21:31:55.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-19 21:31:55.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-19 21:31:55.258][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.259][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:55.259][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:55.259][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:55.261][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-19 21:31:55.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:55.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:55.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:55.267][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:55.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:55.269][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-19 21:31:55.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-19 21:31:55.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:55.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:55.275][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.277][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-19 21:31:55.277][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-19 21:31:55.279][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:55.282][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:55.284][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-19 21:31:55.286][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:55.289][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:55.291][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:55.296][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-19 21:31:55.301][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-19 21:31:55.303][biodb::testThat]
biodb.INFO [2025-09-19 21:31:55.304][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-09-19 21:31:55.306][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:55.307][biodb::testThat]
sched.DEBUG[2025-09-19 21:31:55.312][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-19 21:31:55.315][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.324][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-19 21:31:55.326][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:55.332][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".
fscache.INFO [2025-09-19 21:31:55.336][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.342][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-19 21:31:55.344][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.361][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".
sched.DEBUG[2025-09-19 21:31:55.364][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".
fscache.INFO [2025-09-19 21:31:55.368][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.372][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-19 21:31:55.373][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:55.467][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".
fscache.INFO [2025-09-19 21:31:55.470][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.473][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-19 21:31:55.475][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.490][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".
sched.DEBUG[2025-09-19 21:31:55.493][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".
fscache.INFO [2025-09-19 21:31:55.497][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.499][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-19 21:31:55.501][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.532][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".
sched.DEBUG[2025-09-19 21:31:55.537][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".
fscache.INFO [2025-09-19 21:31:55.541][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.544][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-19 21:31:55.545][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:55.564][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".
fscache.INFO [2025-09-19 21:31:55.568][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.571][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-19 21:31:55.572][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:55.591][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".
fscache.INFO [2025-09-19 21:31:55.595][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.600][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-19 21:31:55.601][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.620][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.INFO [2025-09-19 21:31:55.629][biodb::testThat]
biodb.INFO [2025-09-19 21:31:55.630][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-09-19 21:31:55.632][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:55.633][biodb::testThat]
sched.DEBUG[2025-09-19 21:31:55.637][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".
fscache.INFO [2025-09-19 21:31:55.642][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.645][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-19 21:31:55.646][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-19 21:31:55.671][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".
fscache.INFO [2025-09-19 21:31:55.679][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:55.681][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-19 21:31:55.682][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:55.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:55.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-19 21:31:55.713][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-19 21:31:55.717][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-19 21:31:55.718][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-19 21:31:55.719][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:55.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:55.725][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:55.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:55.731][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-19 21:31:55.739][biodb::testContext]
biodb.INFO [2025-09-19 21:31:55.740][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:55.741][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-19 21:31:55.742][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:55.747][biodb::testContext]
biodb.INFO [2025-09-19 21:31:55.753][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:55.755][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:55.762][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:55.763][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-19 21:31:55.764][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.776][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-19 21:31:55.778][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.784][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-19 21:31:55.788][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.792][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-19 21:31:55.794][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-19 21:31:55.795][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-19 21:31:55.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.807][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-19 21:31:55.811][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-19 21:31:55.813][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.817][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-19 21:31:55.818][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-19 21:31:55.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.822][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-19 21:31:55.823][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-19 21:31:55.824][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-19 21:31:55.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.829][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-19 21:31:55.830][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.834][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-19 21:31:55.835][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-19 21:31:55.839][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-19 21:31:55.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.843][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:55.845][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-19 21:31:55.846][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-19 21:31:55.847][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-19 21:31:55.848][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-19 21:31:55.851][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-19 21:31:55.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.855][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-19 21:31:55.856][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-19 21:31:55.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.865][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-19 21:31:55.866][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-19 21:31:55.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.871][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[2025-09-19 21:31:55.872][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-19 21:31:55.873][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-19 21:31:55.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.877][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-19 21:31:55.878][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-19 21:31:55.880][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-19 21:31:55.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.884][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:55.885][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-19 21:31:55.893][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-19 21:31:55.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:55.903][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-19 21:31:55.908][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-19 21:31:55.910][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-19 21:31:55.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:55.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:55.917][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[2025-09-19 21:31:55.923][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-19 21:31:55.929][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.931][self$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[2025-09-19 21:31:55.933][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.937][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:55.939][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.940][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.945][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.947][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.948][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:55.950][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:55.951][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.953][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-19 21:31:55.954][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:55.956][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:55.957][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.959][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:55.959][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:55.959][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:55.959][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:55.959][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:55.960][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:55.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:55.963][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:55.964][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:55.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:55.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:55.968][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.970][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:55.971][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:55.972][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:55.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.975][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:55.977][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-19 21:31:55.980][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.981][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:55.983][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.984][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:55.985][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:55.987][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.988][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:55.990][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:55.991][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:55.993][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:55.994][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.000][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-19 21:31:56.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.003][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.008][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.009][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:56.009][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:56.009][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:56.009][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:56.009][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:56.011][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.014][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.028][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.036][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.038][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.039][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.040][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.046][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-19 21:31:56.052][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.067][self$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[2025-09-19 21:31:56.071][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.072][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.074][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.081][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.082][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.088][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.089][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:56.091][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.097][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-19 21:31:56.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.104][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.105][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.110][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.112][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.116][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.132][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.134][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.135][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.140][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.142][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.144][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-19 21:31:56.150][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.152][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:56.157][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.158][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.163][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.164][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.166][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.171][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.173][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:56.174][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.180][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.181][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-19 21:31:56.186][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.188][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.192][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.194][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.195][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.202][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.208][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.213][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.215][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.216][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.221][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.223][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.228][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.230][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:56.235][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.303][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[2025-09-19 21:31:56.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.336][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[2025-09-19 21:31:56.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.344][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-19 21:31:56.346][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-19 21:31:56.348][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-19 21:31:56.350][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-19 21:31:56.352][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:56.354][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-19 21:31:56.356][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:56.358][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:56.360][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-19 21:31:56.362][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-19 21:31:56.364][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:56.366][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-19 21:31:56.368][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:56.370][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:56.372][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-19 21:31:56.374][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-19 21:31:56.376][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-19 21:31:56.378][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-19 21:31:56.380][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:56.383][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-19 21:31:56.385][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-19 21:31:56.387][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-19 21:31:56.389][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-19 21:31:56.391][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-19 21:31:56.393][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-19 21:31:56.395][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-19 21:31:56.397][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-19 21:31:56.399][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-19 21:31:56.401][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-19 21:31:56.402][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-19 21:31:56.404][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-19 21:31:56.406][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-19 21:31:56.408][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-19 21:31:56.409][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-19 21:31:56.411][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-19 21:31:56.413][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-19 21:31:56.415][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-19 21:31:56.417][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-19 21:31:56.419][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-19 21:31:56.420][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-19 21:31:56.422][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-19 21:31:56.423][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-19 21:31:56.425][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-19 21:31:56.426][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-19 21:31:56.428][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-19 21:31:56.430][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-19 21:31:56.431][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-19 21:31:56.433][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-19 21:31:56.434][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-19 21:31:56.436][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-19 21:31:56.437][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-19 21:31:56.439][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-19 21:31:56.440][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-19 21:31:56.442][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-19 21:31:56.444][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-19 21:31:56.445][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-19 21:31:56.447][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-19 21:31:56.448][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-19 21:31:56.450][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-19 21:31:56.451][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-19 21:31:56.453][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-19 21:31:56.455][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-19 21:31:56.456][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-19 21:31:56.458][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-19 21:31:56.459][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-19 21:31:56.461][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-19 21:31:56.462][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:56.464][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:56.466][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-19 21:31:56.467][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-19 21:31:56.469][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-19 21:31:56.470][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-19 21:31:56.472][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-19 21:31:56.473][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-19 21:31:56.475][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-19 21:31:56.477][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-19 21:31:56.478][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-19 21:31:56.480][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-19 21:31:56.481][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-19 21:31:56.483][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-19 21:31:56.484][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-19 21:31:56.486][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-19 21:31:56.488][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-19 21:31:56.489][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-19 21:31:56.491][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:56.492][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:56.493][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.495][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.496][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[2025-09-19 21:31:56.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.523][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[2025-09-19 21:31:56.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.543][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[2025-09-19 21:31:56.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.612][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:56.613][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-19 21:31:56.616][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.617][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.618][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.619][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.620][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.621][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.622][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.623][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-19 21:31:56.624][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-19 21:31:56.625][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.626][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.627][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-19 21:31:56.629][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-19 21:31:56.630][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-19 21:31:56.631][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.632][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:56.632][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:56.632][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:56.633][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-19 21:31:56.634][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.635][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.636][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.641][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-19 21:31:56.641][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-19 21:31:56.642][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.643][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.644][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.645][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-19 21:31:56.645][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-19 21:31:56.646][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:56.648][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:56.650][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-19 21:31:56.652][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:56.653][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:56.655][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:56.658][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-19 21:31:56.662][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-19 21:31:56.663][biodb::testThat]
biodb.INFO [2025-09-19 21:31:56.664][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-19 21:31:56.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:56.667][biodb::testThat]
sched.DEBUG[2025-09-19 21:31:56.669][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-19 21:31:56.672][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:56.679][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-19 21:31:56.680][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:56.683][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-19 21:31:56.686][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:56.692][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-19 21:31:56.693][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-19 21:31:56.702][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-19 21:31:56.703][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-19 21:31:56.704][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-19 21:31:56.705][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:56.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:56.707][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:56.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:56.709][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-19 21:31:56.714][biodb::testContext]
biodb.INFO [2025-09-19 21:31:56.715][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:56.716][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-19 21:31:56.717][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-19 21:31:56.718][biodb::testContext]
biodb.INFO [2025-09-19 21:31:56.720][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:56.722][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:56.726][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:56.727][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-19 21:31:56.729][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.733][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-19 21:31:56.734][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.738][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-19 21:31:56.739][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.743][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-19 21:31:56.744][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-19 21:31:56.746][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-19 21:31:56.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.749][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-19 21:31:56.750][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-19 21:31:56.752][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.756][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-19 21:31:56.757][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-19 21:31:56.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.761][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-19 21:31:56.762][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-19 21:31:56.763][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-19 21:31:56.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.766][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-19 21:31:56.768][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.772][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-19 21:31:56.773][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-19 21:31:56.774][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-19 21:31:56.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.777][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[2025-09-19 21:31:56.778][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:56.779][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-19 21:31:56.780][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-19 21:31:56.781][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-19 21:31:56.782][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-19 21:31:56.783][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-19 21:31:56.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.787][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-19 21:31:56.788][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-19 21:31:56.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.792][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-19 21:31:56.793][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-19 21:31:56.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.797][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-19 21:31:56.798][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-19 21:31:56.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.802][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-19 21:31:56.804][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-19 21:31:56.805][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-19 21:31:56.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.809][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-19 21:31:56.810][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-19 21:31:56.814][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-19 21:31:56.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.817][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[2025-09-19 21:31:56.818][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-19 21:31:56.819][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-19 21:31:56.823][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-19 21:31:56.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:56.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:56.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:56.829][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-19 21:31:56.832][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.834][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-19 21:31:56.835][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.837][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.838][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.840][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.842][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.844][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:56.845][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.847][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.848][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-19 21:31:56.850][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.851][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.852][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.854][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:56.854][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:56.854][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:56.854][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:56.854][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:56.856][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.858][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.860][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.864][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.865][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.866][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.868][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.869][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.871][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.872][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-19 21:31:56.875][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.876][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:56.878][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.879][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.881][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.882][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.884][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.885][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.886][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:56.888][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.889][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.891][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-19 21:31:56.892][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.894][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.895][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.897][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:56.897][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:56.897][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:56.897][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-19 21:31:56.897][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-19 21:31:56.898][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.902][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.907][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.908][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.911][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.914][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.916][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-19 21:31:56.918][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.920][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-19 21:31:56.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.927][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.929][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.930][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-19 21:31:56.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.933][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.935][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-19 21:31:56.936][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.937][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.939][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.940][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.942][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.946][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.948][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.949][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.950][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.952][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.953][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.955][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:56.956][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.958][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.959][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-19 21:31:56.962][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.964][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-19 21:31:56.965][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.967][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:56.968][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.970][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.971][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.973][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.974][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-19 21:31:56.976][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:56.977][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:56.979][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-19 21:31:56.980][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:56.982][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.983][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:56.985][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.986][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-19 21:31:56.988][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.990][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:56.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:56.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:56.995][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:56.996][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:56.997][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:56.999][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:57.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:57.002][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-19 21:31:57.004][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:57.005][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.053][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[2025-09-19 21:31:57.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.059][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[2025-09-19 21:31:57.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.085][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[2025-09-19 21:31:57.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.104][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.DEBUG[2025-09-19 21:31:57.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.117][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[2025-09-19 21:31:57.118][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-19 21:31:57.121][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-19 21:31:57.123][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-19 21:31:57.124][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-19 21:31:57.126][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:57.128][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-19 21:31:57.130][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:57.132][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:57.134][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-19 21:31:57.136][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-19 21:31:57.138][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:57.140][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-19 21:31:57.142][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-19 21:31:57.144][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-19 21:31:57.146][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-19 21:31:57.148][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-19 21:31:57.150][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-19 21:31:57.152][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-19 21:31:57.154][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:57.156][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-19 21:31:57.158][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-19 21:31:57.160][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-19 21:31:57.162][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-19 21:31:57.164][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-19 21:31:57.166][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-19 21:31:57.168][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-19 21:31:57.169][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-19 21:31:57.171][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-19 21:31:57.173][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-19 21:31:57.174][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-19 21:31:57.175][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-19 21:31:57.177][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-19 21:31:57.178][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-19 21:31:57.180][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-19 21:31:57.181][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-19 21:31:57.183][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-19 21:31:57.184][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-19 21:31:57.185][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-19 21:31:57.187][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-19 21:31:57.188][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-19 21:31:57.190][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-19 21:31:57.191][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-19 21:31:57.193][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-19 21:31:57.194][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-19 21:31:57.196][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-19 21:31:57.198][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-19 21:31:57.199][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-19 21:31:57.201][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-19 21:31:57.202][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-19 21:31:57.204][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-19 21:31:57.206][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-19 21:31:57.207][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-19 21:31:57.209][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-19 21:31:57.210][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-19 21:31:57.212][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-19 21:31:57.213][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-19 21:31:57.215][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-19 21:31:57.217][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-19 21:31:57.218][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-19 21:31:57.220][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-19 21:31:57.221][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-19 21:31:57.223][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-19 21:31:57.224][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-19 21:31:57.226][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-19 21:31:57.227][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-19 21:31:57.229][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-19 21:31:57.231][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:57.232][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:57.234][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-19 21:31:57.235][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-19 21:31:57.237][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-19 21:31:57.238][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-19 21:31:57.240][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-19 21:31:57.242][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-19 21:31:57.243][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-19 21:31:57.245][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-19 21:31:57.246][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-19 21:31:57.247][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-19 21:31:57.249][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-19 21:31:57.250][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-19 21:31:57.252][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-19 21:31:57.254][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-19 21:31:57.255][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-19 21:31:57.257][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-19 21:31:57.259][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-19 21:31:57.260][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-19 21:31:57.261][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.263][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.363][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[2025-09-19 21:31:57.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-19 21:31:57.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-19 21:31:57.394][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-19 21:31:57.399][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-19 21:31:57.401][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:57.406][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-19 21:31:57.407][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:57.413][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-19 21:31:57.414][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:57.415][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-19 21:31:57.420][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:57.421][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-19 21:31:57.422][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-19 21:31:57.423][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-19 21:31:57.425][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:57.426][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-19 21:31:57.431][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-19 21:31:57.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-19 21:31:57.437][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-19 21:31:57.439][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-19 21:31:57.439][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-19 21:31:57.439][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-19 21:31:57.440][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-19 21:31:57.445][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:57.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:57.447][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-19 21:31:57.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-19 21:31:57.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-19 21:31:57.453][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-19 21:31:57.454][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-19 21:31:57.454][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-19 21:31:57.456][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-19 21:31:57.457][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-19 21:31:57.458][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-19 21:31:57.459][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-19 21:31:57.459][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-19 21:31:57.460][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-19 21:31:57.462][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-19 21:31:57.464][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-19 21:31:57.466][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-19 21:31:57.468][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-19 21:31:57.477][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-19 21:31:57.481][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-19 21:31:57.484][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-19 21:31:57.486][biodb::testThat]
biodb.INFO [2025-09-19 21:31:57.487][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-19 21:31:57.488][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-19 21:31:57.489][biodb::testThat]
sched.DEBUG[2025-09-19 21:31:57.492][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-19 21:31:57.494][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:57.501][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-19 21:31:57.502][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-19 21:31:57.506][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".
fscache.INFO [2025-09-19 21:31:57.509][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-19 21:31:57.511][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-19 21:31:57.512][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-19 21:31:57.516][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-19 21:31:57.519][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-19 21:31:57.520][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-19 21:31:57.538][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-19 21:31:57.545][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-19 21:31:57.546][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-19 21:31:57.549][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-19 21:31:57.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-19 21:31:57.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-19 21:31:57.583][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.586][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.593][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:57.595][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:57.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.598][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-19 21:31:57.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-19 21:31:57.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.604][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:57.606][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:57.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-19 21:31:57.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-19 21:31:57.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-19 21:31:57.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-19 21:31:57.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.618][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-19 21:31:57.621][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-19 21:31:57.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.623][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.625][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:57.626][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:57.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.629][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.631][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:57.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-19 21:31:57.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.635][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:57.637][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:57.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.639][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.641][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-19 21:31:57.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-19 21:31:57.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.646][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:57.647][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:57.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:57.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-19 21:31:57.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:57.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:57.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.659][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-19 21:31:57.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-19 21:31:57.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:57.668][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:57.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-19 21:31:57.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-19 21:31:57.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.676][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:57.677][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:57.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.680][ef$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-19 21:31:57.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-19 21:31:57.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-19 21:31:57.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-19 21:31:57.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-19 21:31:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-19 21:31:57.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-19 21:31:57.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-19 21:31:57.733][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-19 21:31:57.737][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-19 21:31:57.738][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-19 21:31:57.739][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-19 21:31:57.740][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-19 21:31:57.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-19 21:31:57.742][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-19 21:31:57.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-19 21:31:57.744][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-19 21:31:57.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
!is.na(content) is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE
`actual`:
`expected`: TRUE
Backtrace:
▆
1. ├─base::do.call(fct, params)
2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
3. └─testthat::expect_true(nchar(content) > 0)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.840 | 0.187 | 1.090 | |
| ChebiEntry | 0.180 | 0.002 | 0.187 | |